<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 06:24:23"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E331022" ref_strand="+" ref_description="SGN-E331022 [cTOD-6-G1]">
      <seq>caatccatcaaaacgactttcgtttttcaaccttcattgcttcagatctcttcttcttcaccatttctataactgctcatttcaaatcttcttcttatatataaattcatcattctcgtaaatatatacatattgatgatacgtttgattttgtatacatatatatattgttgaacaattgaattttgattcggatttggtgaggtattgtttctgttttgtagttgacgattttgaaaatgccggcggtttctggacctgtaacgccaggacaggtgtcatttttgcttggatatatacctgtcctcatcgcatggatatatgctgagtggttggagtacaagaagtggttgtttccctttaaagttcattcagataataatctggatgaacttgagatctcaacaaccaaggaagaagatcgagctgtcttactggaaggaggtctgtcaaaatctgcatctgtgaagttgtcaagttcatcggtaaaaacaaacataattaggtttttaacaatggaggatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="14721" stop="18431"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="14988" g_stop="15243" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="275" r_length="253" r_score="0.906"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15244" i_stop="17011" i_length="1768">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.642" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="17012" g_stop="17103" g_length="92"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="367" r_length="92" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="17104" i_stop="17892" i_length="789">
            <donor d_prob="0.640" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="17893" g_stop="18030" g_length="138"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="505" r_length="138" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="18031" i_stop="18111" i_length="81">
            <donor d_prob="0.935" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="18112" g_stop="18131" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="506" r_stop="525" r_length="20" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E331022" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E331022" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="14988" e_stop="15243"/>
          <exon e_start="17012" e_stop="17103"/>
          <exon e_start="17893" e_stop="18030"/>
          <exon e_start="18112" e_stop="18131"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCACCATTTCTATAACTGCTCATTTC-AAATCTTCTTCTTATATATAAATTGCTCATTTCAAATCTTCTTCTTATATATAAATTCATCATTCTCGTAAATATATACATATTGATGATACGTTTGATTTTGTATACATATATATATTGTTGAACAATTGAATTTTGATTCGGATTTGGTGAGGTATTGTTTCTGTTTTGTAGTTGACGATTTTTGAAAATGCCGGCGGTTTCTGGACCTGTAACGCCAGGACAGGTGAGTTTTTTTGTATTAATTTGTTGTTGATACAGTATTTGAAATGATTTTTGTTGATGTATTGATGAAAATGTGAGTGTTTTCGAGTGTTTGAAGTGTAATTGGAGCAATTTATGAGTTAAAATGTGGAGAATTTGCACAAATGGGTGTGGTGTGTGGCGTAGTGATCAATGAAAGAGGTTTTAGAACTATGAGGTGTGAGGTTTAAATCTAGCAGAGACAAAAATACTAGATGGTTTCTTTTTATTTGTTTGAGTCTTGGTGGATGGAGTTATGTGATACGTGTTGTTGATGGGAGGTGAGAGGTATGGAATTAGTTGAGCTGTGTGAAAGCTGGCACGAACAGTACAATTGTCAGGAAGAAAATGCTGAATTTTGATATTAGATCAGTGAGATTATGAGGACTAAGGTTTAAACGTAGGTGAAAGCTAGTTGGGACACCACAGTTATCAAAAAAAAAAGAATTTTGATATTAGATCAGTGAGATTATGAGGTCTAAGGTTCAAGCCTAGCTGAGAAGAAAAATAGTAAGTGATTTCTTTCTATTTTTGTTCTAGCCTTAGTGGATGAGTTATCTGGTACATGTTGTTGATAGGAGGTGGTAGGTATGGGATTAGTTGAGGGGTGTGAAAGCTGGCCTGAACACCATAATTATCAAAAGGAAAATGCAGAATTTTGATGTTTCAGATTAGTGAGATGAGCTGATCTGAGCTGTGTCAAATTATAAAGATAATTAGACTTTGTTACGTTCTTGCTCGTGTTTATCACTGGATGACTTTGATAGTTTGATGTGAAGAACTTACTTGATTTGAAAGTACTAGCAATTCTATACAATTGCCATATGAATTTGTTGTTTTCATCACGTTGTTCATGTTTTGATTCTTACTAGTAGAGCTTGACTTCAGAACAGGCTAATTATCTCCTAATCTTACAACATAGGTAGGGTTTGAATTATGAGTGAAAAAAACTGAGTTAACTGCCTAGGCTCGATGGTCAACTACTGACGAAATACGAGTTCAGCTTGTGTTATGTAGATTCTCTGTGCTGTTCATTTCTTTGAAGGACAAAGATTTTCATCATAGATTTTGATTCAGTATGAATAACTTAGGTTTTCATTCATTTTGGTACCTGAAAACTCTCAGGTTTATCTATCTGTCTGATTTTAAGGGAAATTTGGGTGAGTAACTCACATAGGTAGTGAATAGATATATTTGAGGTGTGTGTGAATTGATCATGTTGTGCAGGATTTTACAATTGTTGGCTAGATATAAGTGTTTTAACAACTTTCCTCTGCTAGGAAAAGCGCTTAGCACTCCTTAAATGAATTCTTGACATCACATAGAGCAAAAGTTGAAGTAGGTGCTTGATGTCTGATTTATGACAGCATGTTTTCTTTACGGCTGACACAGTTACAATTATATAGCATTACTGAATCTCAGATCTCTCATTTGTGACATCCAATAAGATCATATCTCATTTGCAAATTTCAGAGTGCTTTTTTCCTTACATTTCCTTTTGAGTTTATTTGCCTTGTATTGGATTAAGGTTCGGGTGTCAGAAATAAGTTGCTATCTGTATATTGTGGAATTTGGTCATTCTGAAATTTTTCTTTCACAGTTTGTTTGGTCTAGCATGTACCTGCATTTTAAGGTTTCAATGCACCTGTACTGCTGCTACTATGTGGAACATCTTGTTTTGCTTTATTTGTTATGCTCTTGAGGAAATCATGCGTAGATATCTACTGAAGCCTACCCTTGTCATGTCTCAGGTGTCATTTTTGCTTGGATATATACCTGTCCTCATCGCATGGATATATGCTGAGTGGTTGGAGTACAAGAAGTGGTTGTTTCCCTTTAAAGTGTAAGTTAATCCATCCATTCACCATCCAAAAGAAAAAGGAAAAAACTGAAAACTCATATATCCTCATGCTGCAGCTAGATTTTCTGAGACATGCTAAGACAGTTGTAGCATTTGTGCGCTTCCTTTAAGTCGCTTGCCAAATCCTATCGAATGGCTTTATTTTAGAAAAAAAAAACAGAATTGGATTTAATGTGTGAACAAATCTCGTCTGGATAACACAAACAAATGTTATGTTATACATTTGCTACAAAATGTTGGTGGATAATATAGAGTCAACAATGTTGAAAATAGTGTGTGGGGAATATGAATGCTATATTATATTATATTTTAATAAGATATTTCATTAATGCTTGGGTCAAACTCGTCTGTACACAAGTACAACAACAACAACACACCAAGTGTAATCCCACAAGTGGGTCTGGGGAGGGTGGTGTGTGCGCAAACCCTGCCCCTACCTTGTGGAGGTAGCGAGACTGTTTCTAATAGACCCTCGACTCCAGTTTGTATACAAGTAATATACCAAAAAAATAGAAAGACTGACTGTGTAATTATCACTACTATTGTTCTTGTTAGTATTATTATTTTAAAAAGAGTGAACTTCTTGAAATTGAAGCATCTATTTTATGCCTTTGCAAAATTGAATTTTTAATTAAGGACAAAAAGTTTCTTTGGGCATCTTGATTTTAAGCACTGTAAAGATTGTTTTGTGTAGGCGATAATTTATCCAGGGATATTACTTAATCTGCTATAAGTGTTCTATTTGTATGGCTGACTTTTTCATGCCAACAGTCATTCAGATAATAATCTGGATGAACTTGAGATCTCAACAACCAAGGAAGAAGATCGAGCTGTCTTACTGGAAGGAGGTCTGTCAAAATCTGCATCTGTGAAGTTGTCAAGTTCATCGGTAAAAACAAACATAATTAGGTGAGTGTGCTACATTCAATTTGCTGAATATTCTACTTTTAAGTTCGTGAATCTTTCCTTAGCATTTTCACATATTTGTAGGTTTTTAACAATGGAGGATG</genome_strand>
        <mrna_strand>TTTTTCAAC-CTTC-ATTGCTTCAGATCTCTTCTTCTTCACCATTTCTAT-AACTGCTCATTTCAAATCTTCTTCTTATATATAAATTCATCATTCTCGTAAATATATACATATTGATGATACGTTTGATTTTGTATACATATATATATTGTTGAACAATTGAATTTTGATTCGGATTTGGTGAGGTATTGTTTCTGTTTTGTAGTTGACGA-TTTTGAAAATGCCGGCGGTTTCTGGACCTGTAACGCCAGGACAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTGTCATTTTTGCTTGGATATATACCTGTCCTCATCGCATGGATATATGCTGAGTGGTTGGAGTACAAGAAGTGGTTGTTTCCCTTTAAAGT.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TCATTCAGATAATAATCTGGATGAACTTGAGATCTCAACAACCAAGGAAGAAGATCGAGCTGTCTTACTGGAAGGAGGTCTGTCAAAATCTGCATCTGTGAAGTTGTCAAGTTCATCGGTAAAAACAAACATAATTAG.................................................................................GTTTTTAACAATGGAGGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318820" ref_strand="+" ref_description="SGN-E318820 [cTOB-11-P1]">
      <seq>tttatatctgggcttgaccgctatatatggattattggcatgatatatgcctattttcacccaaatgttgagaagttgatggagaaactggaggagtctgaaccaaagcggagacggacaattaagtcaaccatctgtgcagtaactttaattgttgggtacttgtggtttgaatacatctacaagcttgacaagacagcttacaataaactccacccctacacgtcatggattcctattactgtatacatatgcttgcgtaatttgactcaggagctgcggaatttctctctgacactctttgcgtggcttgggaaaattaccttagaaacctacatctcccagttccacatctggctgagatcaaatatgccaaatggacagcctaaatggctcctttcatttatcccgggctatcctatgcttaatttcatgctgactacagcaatttatgtactgctatcatgtaggctttttgaactaaccaacacactcaaatccgttttcgtacccacaagagacaatcagaagctgctccacaactttattgctggtgtcgcaatttctctgtgtttatacatcatttcctttatccttattcaaatccctcattaatgaaaccatttatctggact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="20474" stop="22588"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="20774" g_stop="20839" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="66" r_length="66" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="20840" i_stop="20929" i_length="90">
            <donor d_prob="0.523" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="20930" g_stop="21016" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="67" r_stop="153" r_length="87" r_score="0.989"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21017" i_stop="21113" i_length="97">
            <donor d_prob="0.153" d_score="1.00"/>
            <acceptor a_prob="0.977" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21114" g_stop="21202" g_length="89"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="242" r_length="89" r_score="0.978"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21203" i_stop="21398" i_length="196">
            <donor d_prob="0.988" d_score="0.98"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21399" g_stop="21461" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="243" r_stop="305" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21462" i_stop="21650" i_length="189">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="21651" g_stop="21707" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="306" r_stop="362" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="21708" i_stop="21814" i_length="107">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="21815" g_stop="21911" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="459" r_length="97" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="21912" i_stop="21998" i_length="87">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="21999" g_stop="22157" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="618" r_length="159" r_score="0.994"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="22158" i_stop="22271" i_length="114">
            <donor d_prob="0.922" d_score="1.00"/>
            <acceptor a_prob="0.758" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="22272" g_stop="22288" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="619" r_stop="635" r_length="17" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318820" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318820" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="20774" e_stop="20839"/>
          <exon e_start="20930" e_stop="21016"/>
          <exon e_start="21114" e_stop="21202"/>
          <exon e_start="21399" e_stop="21461"/>
          <exon e_start="21651" e_stop="21707"/>
          <exon e_start="21815" e_stop="21911"/>
          <exon e_start="21999" e_stop="22157"/>
          <exon e_start="22272" e_stop="22288"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTAGATCTGGGCTTGACCGCTATATATGGATTATTGGCATGATATATGCCTATTTTCACCCAAATGTAATTCCAAAGAACTTTGCATTTTCGTTGTTTGTCCAACTTTTCTTCCTCTTCCATGGTACTGAAGTTTGCAGTATCTTGTCCTTTTAGGTTGAGAAGTGGATGGAGAAACTGGAGGAGTCTGAACCAAAGCGGAGACGGACAATTAAGTCAACCATCTGTGCAGTAACTTTAATTGTGAGTTGCATTTAAGTTCATCAGATAGTAAAATCAGGTGTTGCAAATTATCTTTTTATTTTATGAAGTTTGTCATTTGGGAGACTGTATTCCTCAGGTTGGGTACTTGTGGTTTGAATACATCTACAAGCTGGACAAGACAGCTTACAACAAACTCCACCCCTACACGTCATGGATTCCTATTACGTATGTTTTTAGCTTTTCTAGTTCTCTTTTATCTGTTGATTTTACACGAAACTTATACTAATGTAAATTACTGCTGTTTGTTTGATTTGAAAACGAACAGTAAAAAGGTCCCTGCTTGCCTATAATGTACTTAAACCAAAGTTTGTCTCCTGAATGTCTTGTATTATTTTTCTCATTTGCTTTCTTTGCCTCACAGTGTATACATATGCTTGCGTAATTTGACTCAGGAGCTGCGGAATTTCTCTCTGACACTCTTTGCGTAAGTTTCTAAACCATTTGTCTACCCGATCATGTCTTTCCTTTTTTGCTAATGCCTTTTAAATCATCCTTCACTTAGTTTTGATACTAACAGTTAAGCTCTACAGAATTAAAGATCTTTATTTGTTCTTCTTAAATAAGTTGAATCTACTTTGATTTCTCCTTGTCTAACTGTGGTCTGTTACTGTAGGTGGCTTGGGAAAATTACCTTAGAAACCTACATCTCCCAGTTCCACATCTGGCTGAGGTATGTTCATTTCAATTTTCTTCTTAAGGCTGAGGTATGTTCGAGAACTTACTTTTTTTTTACTTACATGCTACGAGGACTTATTGCTTTCTGACTATTATCTGTAGATCAAATATGCCAAATGGACAGCCTAAATGGCTCCTTTCATTTATCCCGGGCTATCCTATGCTTAATTTCATGCTGACTACAGCAATTTATGTACTGGTAAGCATATATACTCTTTTCAATTTTGAGTCGTAAACCATTTTTTCTCCTGGTAGGTTCTATCTAAACATTTCTTGCTTATTGCAGCTATCATGTAGGCTTTTTGAACTAACCAACACACTCAAATCCGTTTTCGTACCCACAAGAGACAATCAGAAGCTGCTCCACAACTTTATTGCTGGTGTCGCGATTTCTCTGTGTTTATACATCATTTCCTTTATCCTTATTCAAATCCCTCATTAATGAGTAAGTTTGTTATCCCATTTTCCTATTTGCTATGCACAACATCCTAAAATTCAGAAAAACTGCTAATCTTGTAGCACACATACTTACTTTGCGCGTTAATTATTTTTTTTGTAGAACCATTTATCTGGACT</genome_strand>
        <mrna_strand>TTTATATCTGGGCTTGACCGCTATATATGGATTATTGGCATGATATATGCCTATTTTCACCCAAAT..........................................................................................GTTGAGAAGTTGATGGAGAAACTGGAGGAGTCTGAACCAAAGCGGAGACGGACAATTAAGTCAACCATCTGTGCAGTAACTTTAATT.................................................................................................GTTGGGTACTTGTGGTTTGAATACATCTACAAGCTTGACAAGACAGCTTACAATAAACTCCACCCCTACACGTCATGGATTCCTATTAC....................................................................................................................................................................................................TGTATACATATGCTTGCGTAATTTGACTCAGGAGCTGCGGAATTTCTCTCTGACACTCTTTGC.............................................................................................................................................................................................GTGGCTTGGGAAAATTACCTTAGAAACCTACATCTCCCAGTTCCACATCTGGCTGAG...........................................................................................................ATCAAATATGCCAAATGGACAGCCTAAATGGCTCCTTTCATTTATCCCGGGCTATCCTATGCTTAATTTCATGCTGACTACAGCAATTTATGTACTG.......................................................................................CTATCATGTAGGCTTTTTGAACTAACCAACACACTCAAATCCGTTTTCGTACCCACAAGAGACAATCAGAAGCTGCTCCACAACTTTATTGCTGGTGTCGCAATTTCTCTGTGTTTATACATCATTTCCTTTATCCTTATTCAAATCCCTCATTAATGA..................................................................................................................AACCATTTATCTGGACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E240070" ref_strand="+" ref_description="SGN-E240070 [cLED-32-H4]">
      <seq>aaactccacccctacacgtcatggattcctattactgtatacatatgcttgcgtaatttgactcaggagctgcggaatttctctctgacactctttgcgtggcttgggaaaattaccttagaaacctacatctcccagttccacatctggctgagatcaaatatgccaaatggacagcctaaatggctcctttcatttatcccgggctatcctatgcttaatttcatgctgactacagcaatttatgtactgctatcatgtaggctttttgaactaaccaacacactcaaatccgttttcgtacccacaagagacaatcagaagctgctccacaactttattgctggtgtcgcaatttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="20868" stop="22407"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="21168" g_stop="21202" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="35" r_length="35" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="21203" i_stop="21398" i_length="196">
            <donor d_prob="0.988" d_score="0.00"/>
            <acceptor a_prob="0.986" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21399" g_stop="21461" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="98" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21462" i_stop="21650" i_length="189">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21651" g_stop="21707" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="155" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="21708" i_stop="21814" i_length="107">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="21815" g_stop="21911" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="252" r_length="97" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="21912" i_stop="21998" i_length="87">
            <donor d_prob="0.988" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="21999" g_stop="22107" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="253" r_stop="361" r_length="109" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E240070" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>361</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E240070" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="21168" e_stop="21202"/>
          <exon e_start="21399" e_stop="21461"/>
          <exon e_start="21651" e_stop="21707"/>
          <exon e_start="21815" e_stop="21911"/>
          <exon e_start="21999" e_stop="22107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTCCACCCCTACACGTCATGGATTCCTATTACGTATGTTTTTAGCTTTTCTAGTTCTCTTTTATCTGTTGATTTTACACGAAACTTATACTAATGTAAATTACTGCTGTTTGTTTGATTTGAAAACGAACAGTAAAAAGGTCCCTGCTTGCCTATAATGTACTTAAACCAAAGTTTGTCTCCTGAATGTCTTGTATTATTTTTCTCATTTGCTTTCTTTGCCTCACAGTGTATACATATGCTTGCGTAATTTGACTCAGGAGCTGCGGAATTTCTCTCTGACACTCTTTGCGTAAGTTTCTAAACCATTTGTCTACCCGATCATGTCTTTCCTTTTTTGCTAATGCCTTTTAAATCATCCTTCACTTAGTTTTGATACTAACAGTTAAGCTCTACAGAATTAAAGATCTTTATTTGTTCTTCTTAAATAAGTTGAATCTACTTTGATTTCTCCTTGTCTAACTGTGGTCTGTTACTGTAGGTGGCTTGGGAAAATTACCTTAGAAACCTACATCTCCCAGTTCCACATCTGGCTGAGGTATGTTCATTTCAATTTTCTTCTTAAGGCTGAGGTATGTTCGAGAACTTACTTTTTTTTTACTTACATGCTACGAGGACTTATTGCTTTCTGACTATTATCTGTAGATCAAATATGCCAAATGGACAGCCTAAATGGCTCCTTTCATTTATCCCGGGCTATCCTATGCTTAATTTCATGCTGACTACAGCAATTTATGTACTGGTAAGCATATATACTCTTTTCAATTTTGAGTCGTAAACCATTTTTTCTCCTGGTAGGTTCTATCTAAACATTTCTTGCTTATTGCAGCTATCATGTAGGCTTTTTGAACTAACCAACACACTCAAATCCGTTTTCGTACCCACAAGAGACAATCAGAAGCTGCTCCACAACTTTATTGCTGGTGTCGCGATTTCTC</genome_strand>
        <mrna_strand>AAACTCCACCCCTACACGTCATGGATTCCTATTAC....................................................................................................................................................................................................TGTATACATATGCTTGCGTAATTTGACTCAGGAGCTGCGGAATTTCTCTCTGACACTCTTTGC.............................................................................................................................................................................................GTGGCTTGGGAAAATTACCTTAGAAACCTACATCTCCCAGTTCCACATCTGGCTGAG...........................................................................................................ATCAAATATGCCAAATGGACAGCCTAAATGGCTCCTTTCATTTATCCCGGGCTATCCTATGCTTAATTTCATGCTGACTACAGCAATTTATGTACTG.......................................................................................CTATCATGTAGGCTTTTTGAACTAACCAACACACTCAAATCCGTTTTCGTACCCACAAGAGACAATCAGAAGCTGCTCCACAACTTTATTGCTGGTGTCGCAATTTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E543903" ref_strand="+" ref_description="SGN-E543903 [TUS-65-P9]">
      <seq>ctcaaagtactcttaaaagcctttctcactcattcttctcactctacatatcaacatatattgtatgtttctttcccaattttggggaaaacaaaaaaagataactctatggaagaagttcaacaaaagctcttggatatcccaaatgaagaaatatgtgaggatgaaaattccaacattgaatcaagtggatcaactaattgttgttcctactttgccaagcataaatggtggtaccaagttgccatttttaccctttttactataattggagaagtagtaacatcactattggttaaaacatattttaccaaaggtggtaaaagtatatggttagtctccttagtgcaaaatgcagggttcccaattcttctccctttcctatacactgtgtcactcaaaaatcatagccaaattgaggtgatcaaaggaaatcaagaaccccatatttgcataatctttttagtttatgctgttctaggtgtgttacttggtggggttagtgttttcaactcgatcggtctaaagtaccttcaagtatcaacacattctctcactagtaccactcgactagggtttagtattatcttctctttattccacaatgcacataagttcaccccagttatagtaaactctctagttcttgtaacagctgcttcagtcattcttgtggttcataataacgagtctggggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="26204" stop="30688"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="26504" g_stop="26648" g_length="145"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="145" r_length="145" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="26649" i_stop="29834" i_length="3186">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="29835" g_stop="30388" g_length="554"/>
          <reference_exon_boundary r_type="cDNA" r_start="146" r_stop="699" r_length="554" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E543903" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E543903" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="26504" e_stop="26648"/>
          <exon e_start="29835" e_stop="30388"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAAAGTACTCTTAAAAGCCTTTCTCACTCATTCTTCTCACTCTACATATCAACATATATTGTATGTTTCTTTCCCAATTTTGGGGAAAACAAAAAAAGATAACTCTATGGAAGAAGTTCAACAAAAGCTCTTGGATATCCCAAGTTAGTATCTATCTATTCTCTCCTCTTTTTTAAAAAAAAAAAAATTAGAGATATCAAATTCGAGTATGTTACGATTTCTTTTGTCAAGAATTGCTTGAGTTTTTTAGATTTAATTAGATGTATTTGATTCGAGTCTGATTATGTAAGAAAAAATTGTTAGTGTGTGATTGCTTGAGATTCCTTCACCTTTAATTAGATGCTTCCGATTTATGTTTTGATTATGTAAAAACATTTAACAAAAGAACAATTTTAAGTTCTTTCACTTTCAGTTAGATGTCTCATGTTCTAGCCCTCGTTATGAAATAATAGTTTGTTAGGGAGTAACCTGAGGTTCATTTATTTTTAATAAAGTTCTCAAATTAAATTGTTAGTTATGAAAAAAAATCATGTTAGTGAGTGTTTTTCTCCGTAAAAATACTTTAAATGATTTAAAATTAATTTAGTTAAATTTCAATACAAGTATCGAGAACCGCAGAAGGAAAAGGAAAAAAAAACACAAGATGGGTTTGTTTGTTGGAGATGGAATTTTCTTTTTGATTCAACTGCAGATATCATAGAGTTTTTGCCATTAAGTTAAGGGTCTGTTTGGGATGACTGGAAATATTCGAGGAGAATGTTTTTTCTTAAAAAAGAGATTTTTTTCAAAAAAAATTAATTTTTATATGTTTGGTAAGTAAATATGAATAGAAAATATTATTTTAAAAATATTTATATATAATATAGATAGACGAAATAAGAAGGAAGAGGGTAGCTGGGTAGGGTAGGGGTATGGGTTAGGGTAGGAGTATAGGCGGGTAGGGTATGGGATGGGATGGGAGCAAGATTTGTAGTGTAAAAGTTATTTTATTTTTAAAAGGAGAAAATCTCGAATATGTCATCAAATTTTCACAAACGAAGTTAACAATGATTTGGTCGTGTTATTAATTAAATCATTCTTTAAAAGGAAAAAGTTTCAAATACATCATTAAATTTTAAAAAAAAAGTCATCTATGTCATACGTTAAAAGTTTAAGCCATCTATACTATTTCAGTTAACAAATTGTGACATAAATGAGCGAGCTAAACTTTTCAAACAAATTACGTAGATGAATTTTTTTAAAACAAATGGATAATATATTTGAATCTTTTTTTCTGTTTTAGGATTGCATCTGCTCGTGATTGGGACAGGTTCAAATGTCATTTATAAAACTTCGGTTTATTAATTTTTTTTCTTCGTAATTATATATTTTTTCTTTTATGAAAATGATTTGACAAGTAATCCTCTTTGGCTGGTCGTTTTCCAAAATAATAATAAAAAAAAATTGCTTAATTATAGACTTGATTGCTCCATCAGAAAGTTGTTCAAATTTTTAATTCTCAAACATGTGTTGATATTTGTACGGTTAGAAGAATATATCATTAATGATAAAATTAAAAAAAATAATAAAGTAGAAAAATATTTAAACTATTAAAATAAAATCTTAAAACACTTAAATTAGAAATCTTAAATTTAAGTCACGAAAATAAATAAAAGAAATTGTAATAAGGAAAATTGATTTATGCAAATATTCATTTTTATGTTATAGAGCATTCATTTTATTGAATATTATATGTTGTAATCTCAATTGATCATGTAAGTATTTATTAAACACATAAATAAATTCAGAATTTTAAGGTTTATAAATTCAATTTGTTAAGGTTCATTAAATATGTTATATTTTTAAAGTTATTAGGTCACATCCCCTATTTATTATAGTTTAATCATTCTTACACATACATCTCAAAAATTTAGATTTAATTGAACTCATAATGGTATACAGTTATTGAAAAAAATAATATCTATTATTTGTAGATGTGATAATTGTTGTGCTTTTAAATATCTTTTCTTCTTTTGTCATATTATATATATTTATATTATAAGCTTTTTCCTAAAATGACATCTTTAGGTGGCAATGAAAATTGTGACCTTTACTATATGGTAGAGCCACATTTTGAGAAAGTAGCCAAAAAAAGAGACAATAATTGTAGGGTAATAAAAAAAGAGGCAATGATAATTCATTATGAGAAAATAACGAGTTATGATTTTTCGGAAATACTTTCTCCGTTCATTATTATTTATTATAGTTTTTATTTTTTAAGAACTTTGACTAACATTTAAGATGTACTTTTTCATTATATTGATCTGTAAAAAAAAATGCAATTTATAATGTATAATTTATGAATATTTAATTTTTTTATTTAAAATATTAAATTAATATAATTTAATTTAACTTTTAAAATTAGTCAAACTGTCTTTTTGAAAAACGCAATATGACAAATAAAAGTGGACGGATAAAATAGTTATTAGTTTTGTTTCTCAATGTAGTAGTAAAATATGCGTTAACTTTACTTTTTTCGGACTATACTTGTGAAATTTCTATGCATCAATTAATTTTATATATAAAAATCTCAAAAAAAAATATAATATACGTAGAAATTATCCTTATCTTTATCAGGCACAATAACTATTTTCTATTGATCCTCGATTTTCTTTATATATAAAGTAAAGGACAAGAATTAAAAGCAAATTATAGTGGGGTAGGTGTGTGTTGATTTGTTTATTAATCCAAACAATAAAATAAAGAAAACTCCAAAAGCTTATCACAAACCAATTCTTAAATTATATATTCCGTTGTAGCTTCTAATGTAATTTTTTTTAATTTGGGAATAAATGCCATTTTGTTAAAAATTAAGCTTGTTTTAGAAAAAAAAATAAAGCATGTTTAAGTTGGGACTTGGGAGTTCTTTTAGTTACATATAATATTGCTTATAATTAAACATGATCTAATTCGTGAAATATGATAAATAATTTATTATGGTATATGAATCGGTATATATGAGCTAAATCCTTAAGTGATCACTTCTGTCCCGTTACGTTTTGCTCTATTACTTGTATAGTAAGTTTTCAAAAGCTTACTTTATTACACTTGGCGCTATTATAAGTTTTTCTAGTCCATAAAGTAAGATTCAATTTTAATTTCCAACCATCATCTCATTGGCTTAGTTAGAATTATTCTCATCGTATGAGTTATGTACATGTCATTGTGAAGAATTTTTACAGTATCAGGTGACCTCATCGTTTATAGTTTTGTTAAACTGATGGAATATATAACTTAAACTCGTCTTCTTAGTGCCTTATTTATTAATTTAACTTTTATCTTTTTGACAGATGAAGAAATATGTGAGGATGAAAATTCCAACATTGAATCAAGTGGATCAACTAATTGTTGTTCCTACTTTGCCAAGCATAAATGGTGGTACCAAGTTGCCATTTTTACCGTTTTTACTATAATTGGAGAAGTAGTAACATCACTATTGGTTAAAACATATTTTACCAAAGGTGGTAAAAGTATATGGTTAGTCTCCTTAGTGCAAAATGCAGGGTTCCCAATTCTTCTTCCTTTCCTATACACTGTGTCACTCAAAAATCATAGCCAAATTGAGGTGATCAAAGGAAATCAAGAACCCCATATTTGCATAATCTTTTTAGTTTATGCTGTTCTAGGTGTGTTACTTGGTGGGGTTAGTGTTTTCAACTCGATCGGTCTAAAGTACCTTCAAGTATCAACACATTCTCTCACTAGTACCACTCGACTAGGGTTTAGTATTATCTTCTCTTTATTCCACAATGCACATAAGTTCACCCCAGTTATAGTAAACTCTCTAGTTCTTGTAACAGCTGCTTCAGTCATTCTTGTGGTTCATAATAACGAGTCTGGGGAA</genome_strand>
        <mrna_strand>CTCAAAGTACTCTTAAAAGCCTTTCTCACTCATTCTTCTCACTCTACATATCAACATATATTGTATGTTTCTTTCCCAATTTTGGGGAAAACAAAAAAAGATAACTCTATGGAAGAAGTTCAACAAAAGCTCTTGGATATCCCAA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGAAGAAATATGTGAGGATGAAAATTCCAACATTGAATCAAGTGGATCAACTAATTGTTGTTCCTACTTTGCCAAGCATAAATGGTGGTACCAAGTTGCCATTTTTACCCTTTTTACTATAATTGGAGAAGTAGTAACATCACTATTGGTTAAAACATATTTTACCAAAGGTGGTAAAAGTATATGGTTAGTCTCCTTAGTGCAAAATGCAGGGTTCCCAATTCTTCTCCCTTTCCTATACACTGTGTCACTCAAAAATCATAGCCAAATTGAGGTGATCAAAGGAAATCAAGAACCCCATATTTGCATAATCTTTTTAGTTTATGCTGTTCTAGGTGTGTTACTTGGTGGGGTTAGTGTTTTCAACTCGATCGGTCTAAAGTACCTTCAAGTATCAACACATTCTCTCACTAGTACCACTCGACTAGGGTTTAGTATTATCTTCTCTTTATTCCACAATGCACATAAGTTCACCCCAGTTATAGTAAACTCTCTAGTTCTTGTAACAGCTGCTTCAGTCATTCTTGTGGTTCATAATAACGAGTCTGGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E305862" ref_strand="+" ref_description="SGN-E305862 [cLEX-14-N12]">
      <seq>tcaaagtactcttaaaagcctttctcactcattcttctcactctacatatcaacatatattgtatgtttctttcccaattttggggaaaacaaaaaaagataactctatggaagaagttcaacaaaagctcttggatatcccaaatgaagaaatatgtgaggatgaaaattccaacattgaatcaagtggatcaactaattgttgttcctactttgccaagcataaatggtggtaccaagttgccatttttaccctttttactataattggagaagtagtaacatcactattggttaaaacatattttaccaaaggtggtaaaagtatatggttagtctccttagtgcaaaatgcagggttcccaattcttctccctttcctatacactgtgtcactcaaaaatcatagccaaattgaggtgatcaaaggaaatcaagaaccccatatttgcataatctttttagtttatgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="26205" stop="30463"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="26505" g_stop="26648" g_length="144"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="144" r_length="144" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="26649" i_stop="29834" i_length="3186">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="29835" g_stop="30163" g_length="329"/>
          <reference_exon_boundary r_type="cDNA" r_start="145" r_stop="473" r_length="329" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E305862" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E305862" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="26505" e_stop="26648"/>
          <exon e_start="29835" e_stop="30163"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAGTACTCTTAAAAGCCTTTCTCACTCATTCTTCTCACTCTACATATCAACATATATTGTATGTTTCTTTCCCAATTTTGGGGAAAACAAAAAAAGATAACTCTATGGAAGAAGTTCAACAAAAGCTCTTGGATATCCCAAGTTAGTATCTATCTATTCTCTCCTCTTTTTTAAAAAAAAAAAAATTAGAGATATCAAATTCGAGTATGTTACGATTTCTTTTGTCAAGAATTGCTTGAGTTTTTTAGATTTAATTAGATGTATTTGATTCGAGTCTGATTATGTAAGAAAAAATTGTTAGTGTGTGATTGCTTGAGATTCCTTCACCTTTAATTAGATGCTTCCGATTTATGTTTTGATTATGTAAAAACATTTAACAAAAGAACAATTTTAAGTTCTTTCACTTTCAGTTAGATGTCTCATGTTCTAGCCCTCGTTATGAAATAATAGTTTGTTAGGGAGTAACCTGAGGTTCATTTATTTTTAATAAAGTTCTCAAATTAAATTGTTAGTTATGAAAAAAAATCATGTTAGTGAGTGTTTTTCTCCGTAAAAATACTTTAAATGATTTAAAATTAATTTAGTTAAATTTCAATACAAGTATCGAGAACCGCAGAAGGAAAAGGAAAAAAAAACACAAGATGGGTTTGTTTGTTGGAGATGGAATTTTCTTTTTGATTCAACTGCAGATATCATAGAGTTTTTGCCATTAAGTTAAGGGTCTGTTTGGGATGACTGGAAATATTCGAGGAGAATGTTTTTTCTTAAAAAAGAGATTTTTTTCAAAAAAAATTAATTTTTATATGTTTGGTAAGTAAATATGAATAGAAAATATTATTTTAAAAATATTTATATATAATATAGATAGACGAAATAAGAAGGAAGAGGGTAGCTGGGTAGGGTAGGGGTATGGGTTAGGGTAGGAGTATAGGCGGGTAGGGTATGGGATGGGATGGGAGCAAGATTTGTAGTGTAAAAGTTATTTTATTTTTAAAAGGAGAAAATCTCGAATATGTCATCAAATTTTCACAAACGAAGTTAACAATGATTTGGTCGTGTTATTAATTAAATCATTCTTTAAAAGGAAAAAGTTTCAAATACATCATTAAATTTTAAAAAAAAAGTCATCTATGTCATACGTTAAAAGTTTAAGCCATCTATACTATTTCAGTTAACAAATTGTGACATAAATGAGCGAGCTAAACTTTTCAAACAAATTACGTAGATGAATTTTTTTAAAACAAATGGATAATATATTTGAATCTTTTTTTCTGTTTTAGGATTGCATCTGCTCGTGATTGGGACAGGTTCAAATGTCATTTATAAAACTTCGGTTTATTAATTTTTTTTCTTCGTAATTATATATTTTTTCTTTTATGAAAATGATTTGACAAGTAATCCTCTTTGGCTGGTCGTTTTCCAAAATAATAATAAAAAAAAATTGCTTAATTATAGACTTGATTGCTCCATCAGAAAGTTGTTCAAATTTTTAATTCTCAAACATGTGTTGATATTTGTACGGTTAGAAGAATATATCATTAATGATAAAATTAAAAAAAATAATAAAGTAGAAAAATATTTAAACTATTAAAATAAAATCTTAAAACACTTAAATTAGAAATCTTAAATTTAAGTCACGAAAATAAATAAAAGAAATTGTAATAAGGAAAATTGATTTATGCAAATATTCATTTTTATGTTATAGAGCATTCATTTTATTGAATATTATATGTTGTAATCTCAATTGATCATGTAAGTATTTATTAAACACATAAATAAATTCAGAATTTTAAGGTTTATAAATTCAATTTGTTAAGGTTCATTAAATATGTTATATTTTTAAAGTTATTAGGTCACATCCCCTATTTATTATAGTTTAATCATTCTTACACATACATCTCAAAAATTTAGATTTAATTGAACTCATAATGGTATACAGTTATTGAAAAAAATAATATCTATTATTTGTAGATGTGATAATTGTTGTGCTTTTAAATATCTTTTCTTCTTTTGTCATATTATATATATTTATATTATAAGCTTTTTCCTAAAATGACATCTTTAGGTGGCAATGAAAATTGTGACCTTTACTATATGGTAGAGCCACATTTTGAGAAAGTAGCCAAAAAAAGAGACAATAATTGTAGGGTAATAAAAAAAGAGGCAATGATAATTCATTATGAGAAAATAACGAGTTATGATTTTTCGGAAATACTTTCTCCGTTCATTATTATTTATTATAGTTTTTATTTTTTAAGAACTTTGACTAACATTTAAGATGTACTTTTTCATTATATTGATCTGTAAAAAAAAATGCAATTTATAATGTATAATTTATGAATATTTAATTTTTTTATTTAAAATATTAAATTAATATAATTTAATTTAACTTTTAAAATTAGTCAAACTGTCTTTTTGAAAAACGCAATATGACAAATAAAAGTGGACGGATAAAATAGTTATTAGTTTTGTTTCTCAATGTAGTAGTAAAATATGCGTTAACTTTACTTTTTTCGGACTATACTTGTGAAATTTCTATGCATCAATTAATTTTATATATAAAAATCTCAAAAAAAAATATAATATACGTAGAAATTATCCTTATCTTTATCAGGCACAATAACTATTTTCTATTGATCCTCGATTTTCTTTATATATAAAGTAAAGGACAAGAATTAAAAGCAAATTATAGTGGGGTAGGTGTGTGTTGATTTGTTTATTAATCCAAACAATAAAATAAAGAAAACTCCAAAAGCTTATCACAAACCAATTCTTAAATTATATATTCCGTTGTAGCTTCTAATGTAATTTTTTTTAATTTGGGAATAAATGCCATTTTGTTAAAAATTAAGCTTGTTTTAGAAAAAAAAATAAAGCATGTTTAAGTTGGGACTTGGGAGTTCTTTTAGTTACATATAATATTGCTTATAATTAAACATGATCTAATTCGTGAAATATGATAAATAATTTATTATGGTATATGAATCGGTATATATGAGCTAAATCCTTAAGTGATCACTTCTGTCCCGTTACGTTTTGCTCTATTACTTGTATAGTAAGTTTTCAAAAGCTTACTTTATTACACTTGGCGCTATTATAAGTTTTTCTAGTCCATAAAGTAAGATTCAATTTTAATTTCCAACCATCATCTCATTGGCTTAGTTAGAATTATTCTCATCGTATGAGTTATGTACATGTCATTGTGAAGAATTTTTACAGTATCAGGTGACCTCATCGTTTATAGTTTTGTTAAACTGATGGAATATATAACTTAAACTCGTCTTCTTAGTGCCTTATTTATTAATTTAACTTTTATCTTTTTGACAGATGAAGAAATATGTGAGGATGAAAATTCCAACATTGAATCAAGTGGATCAACTAATTGTTGTTCCTACTTTGCCAAGCATAAATGGTGGTACCAAGTTGCCATTTTTACCGTTTTTACTATAATTGGAGAAGTAGTAACATCACTATTGGTTAAAACATATTTTACCAAAGGTGGTAAAAGTATATGGTTAGTCTCCTTAGTGCAAAATGCAGGGTTCCCAATTCTTCTTCCTTTCCTATACACTGTGTCACTCAAAAATCATAGCCAAATTGAGGTGATCAAAGGAAATCAAGAACCCCATATTTGCATAATCTTTTTAGTTTATGCT</genome_strand>
        <mrna_strand>TCAAAGTACTCTTAAAAGCCTTTCTCACTCATTCTTCTCACTCTACATATCAACATATATTGTATGTTTCTTTCCCAATTTTGGGGAAAACAAAAAAAGATAACTCTATGGAAGAAGTTCAACAAAAGCTCTTGGATATCCCAA..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGAAGAAATATGTGAGGATGAAAATTCCAACATTGAATCAAGTGGATCAACTAATTGTTGTTCCTACTTTGCCAAGCATAAATGGTGGTACCAAGTTGCCATTTTTACCCTTTTTACTATAATTGGAGAAGTAGTAACATCACTATTGGTTAAAACATATTTTACCAAAGGTGGTAAAAGTATATGGTTAGTCTCCTTAGTGCAAAATGCAGGGTTCCCAATTCTTCTCCCTTTCCTATACACTGTGTCACTCAAAAATCATAGCCAAATTGAGGTGATCAAAGGAAATCAAGAACCCCATATTTGCATAATCTTTTTAGTTTATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366640" ref_strand="+" ref_description="SGN-E366640 [cLPT-17-K21]">
      <seq>gaattccgattgattttttcgccggccgatctcaaaagacagcaggatctctgtcttcagctgaggtgcagagcttcttgtaatggagaagggaggtttttgcatctccactatggcatcatcaaatatcgccattctattaactattggtgtcatcactgtacttgtgatacaaattatatacattattaataggagcagaaagccgcttcactccaaatcaccacgatccctcagttctcttattgatctgggttcaagtggtcacacaacagaaatgttaaacttattatatgtccttcaaacagagaggtttaagccgaggtattatattgctgctgctactgataatatgagtctccaaaaagcacacgtgtttgaagattccttgctcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="37847" stop="35642"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="37547" g_stop="37503" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="45" r_length="45" r_score="0.933"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="37502" i_stop="36379" i_length="1124">
            <donor d_prob="0.962" d_score="0.93"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="36378" g_stop="36164" g_length="215"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="260" r_length="215" r_score="0.930"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="36163" i_stop="36077" i_length="87">
            <donor d_prob="0.963" d_score="0.92"/>
            <acceptor a_prob="0.990" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="36076" g_stop="35942" g_length="135"/>
          <reference_exon_boundary r_type="cDNA" r_start="261" r_stop="395" r_length="135" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E366640" ref_strand="+">
        <total_alignment_score>0.949</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="37547" e_stop="37503"/>
          <exon e_start="36378" e_stop="36164"/>
          <exon e_start="36076" e_stop="35942"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAATTCCGATTGATTTTTTCGTCGGCCGATTTCAATAGACAGCAGGTTAGTGACAGATTTAGCTCTTTGTCTCGTCGAAGTAAATTTTTCTGTTTCATTGTTTGCAATTTTTTTTTGTGATTTTGTTTCTACTGTATGAAGATAAGTTTCAAATTTCATTTATATGAATTGGGTTTAGCAAAATTTTGATTTTCTTCCCACTGTATGAAGAAAAGTTTCCATTTTTCTGAATTGGGTTTGTAAAATTTTGGTTTTGTTCGTTTGAAATTTCATTTTTTTCTGAATTGGGTTTGCAAATATTTTCATTTAGTTGCGATGTGTTAAGTTGATAATGGCTTCAAACTATGAAGGTTGTGCTGATCTGCCTTTTTAGTGTTACTAAATACTGATTAGATTACTGAATATTTTTCTCGAAAAGAAATGACAAGTTGTGGTAGGAAATTGTAAGTGAAGTTATTAAGCTTCCCAAAAATACGAGCACAGGAATAGTTGTGATGGATTTAACAATTGGTATAAGCTAAAATAAAATGAAAAAAGAGTTGTAGACAGTGTTACTAATAGGAGATGTTGAAGAAGCCTTATAAGAGTATAGCAAAGGCAAATTATTGAAAAATATGTGAACTAAATTAATCTAGTATAGCATAATGGATAACGAGGATTCATATTGCCGATTCCTAGTGTCTTTTTTTAATTTTTATTTGAAGGAATAGCTTATTGATTGATGTGAAATGTTCACGACAAGTGTTCTAGATTTGGGATGAAAAGTTTGAAGTCATATACCAAATCCTTCTATCGATACGGTGGATTTTAATATTAAACCTTTCAAATAAATTGATCAGTAATAACCATAAAATCCTAATCTCTACTCCAACAGACATTTGAGTTAATGTTTATTATGTAATGTGACTTCGACAGTTATTATATCCTGTGACTAATAGTTGTGTAGTCTATCAAGGCAGTTAACCATAGAGACTGTTCTGCATTATGCATAGCCATTCAAGCTTCTCATTTAGTTTTTGTAAGCAAAACATATCTAATCAATGCGCATCTTATATAATCGGTATTTGAATTTCCATTTGAAGCATCCCTCTGGTTAATTAAATTAATACCATTTACCTTTATAAGCTTGTGCTTTGGAATTTATGCTGATTGATTGAAATGTAATCCTGGATCTCTGTCTTCAGCTGAGGTGCAGAGCTTCTTGTAATGGAGAAGGGGGATTTTTGCATCTCCACTATGGCATCATCAAATATCGCAGTTCTATTAGCTATTGGTGTCATCACTTTACTTGTGATACGAATTATTTATGTTATTAATAGGAGAAGAAAGCCGCTTCACTCCAAATCACCACGATCCCTCAGTACACTTATTGTTCTGGGTTCAGGTCTAGTTTTATGTCTGATAGTATTTCTTCTGTTTTACTGCCTTTTCCTTATACTTGTTCTAAATCTTAAGTTCAACTATGATGTAGGTGGTCACACAGCAGAAATGTTAAACTTATTATATGTCCTCCAAACAGAGAGGTTTAAGCCGAGGTATTATATTGCTGCTGCTACTGATAATATGAGTCTCCAAAAAGCACACGTGTTTGAGGATTCCTTGCTCG</genome_strand>
        <mrna_strand>GAATTCCGATTGATTTTTTCGCCGGCCGATCTCAAAAGACAGCAG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATCTCTGTCTTCAGCTGAGGTGCAGAGCTTCTTGTAATGGAGAAGGGAGGTTTTTGCATCTCCACTATGGCATCATCAAATATCGCCATTCTATTAACTATTGGTGTCATCACTGTACTTGTGATACAAATTATATACATTATTAATAGGAGCAGAAAGCCGCTTCACTCCAAATCACCACGATCCCTCAGTTCTCTTATTGATCTGGGTTCAA.......................................................................................GTGGTCACACAACAGAAATGTTAAACTTATTATATGTCCTTCAAACAGAGAGGTTTAAGCCGAGGTATTATATTGCTGCTGCTACTGATAATATGAGTCTCCAAAAAGCACACGTGTTTGAAGATTCCTTGCTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E235142" ref_strand="+" ref_description="SGN-E235142 [cLEL-6-M21](-)">
      <seq>gcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaagagctgtttgcaagagattattcatctataaatgtgttgttatccataaataacaacgcattgaattacccaatcaataaactgtaatatgttcacataaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41080" stop="40111"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40780" g_stop="40393" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="388" r_length="388" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E235142" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>388</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E235142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40780" e_stop="40393"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGTTGTTATCCATAAATAGCAACGCATTGAATCACCCAATCAATAAACTGTAATATGTTCACATAATTTACTATACACCAAACA</genome_strand>
        <mrna_strand>GCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGTTGTTATCCATAAATAACAACGCATTGAATTACCCAATCAATAAACTGTAATATGTTCACATAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234662" ref_strand="+" ref_description="SGN-E234662 [cLEL-6-M21](-)">
      <seq>gatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaagagctgtttgcaagagattattcatctataaatgtgttgttatccataaataacaacgcattgaattacccaatcaataaactgtaatatgttcccataaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41054" stop="40111"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40754" g_stop="40393" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="362" r_length="362" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E234662" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>362</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E234662" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40754" e_stop="40393"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGTTGTTATCCATAAATAGCAACGCATTGAATCACCCAATCAATAAACTGTAATATGTTCACATAATTTACTATACACCAAACA</genome_strand>
        <mrna_strand>GATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGTTGTTATCCATAAATAACAACGCATTGAATTACCCAATCAATAAACTGTAATATGTTCCCATAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733471" ref_strand="+" ref_description="SGN-E733471 [LB10AD09]">
      <seq>gcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaagagctgtttgcaagagattattcatcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41244" stop="40179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40944" g_stop="40474" g_length="471"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="471" r_length="471" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733471" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40944" e_stop="40474"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGT</genome_strand>
        <mrna_strand>GCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733749" ref_strand="+" ref_description="SGN-E733749 [LB10DD04]">
      <seq>gcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaagagctgtttgcaagagattattcatcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41244" stop="40179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40944" g_stop="40474" g_length="471"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="471" r_length="471" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733749" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733749" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40944" e_stop="40474"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGT</genome_strand>
        <mrna_strand>GCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348405" ref_strand="+" ref_description="SGN-E348405 [cTOF-27-B20]">
      <seq>ctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41436" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41136" g_stop="40504" g_length="633"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="633" r_length="633" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348405" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>633</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348405" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41136" e_stop="40504"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGT</genome_strand>
        <mrna_strand>CTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733555" ref_strand="+" ref_description="SGN-E733555 [LB10BD01]">
      <seq>ccgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41375" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41077" g_stop="40504" g_length="574"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="574" r_length="574" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733555" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>574</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41077" e_stop="40504"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGT</genome_strand>
        <mrna_strand>CCGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280426" ref_strand="+" ref_description="SGN-E280426 [cLER-1-F2]">
      <seq>aaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtnaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41286" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40986" g_stop="40505" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="482" r_length="482" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280426" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>482</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280426" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40986" e_stop="40505"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTG</genome_strand>
        <mrna_strand>AAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTNAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731869" ref_strand="+" ref_description="SGN-E731869 [LA28BF09]">
      <seq>ttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaaataattgttttgctaattgtaaattacaagaacctaataatatatatgagtattgttattggatgcattaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41741" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41441" g_stop="40506" g_length="936"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="937" r_length="937" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731869" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>936</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731869" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41441" e_stop="40506"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTG-TTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCT</genome_strand>
        <mrna_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAAATAATTGTTTTGCTAATTGTAAATTACAAGAACCTAATAATATATATGAGTATTGTTATTGGATGCATTAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347789" ref_strand="+" ref_description="SGN-E347789 [cTOF-26-J19]">
      <seq>acccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41136" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40836" g_stop="40506" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="331" r_length="331" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347789" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>331</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347789" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40836" e_stop="40506"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCT</genome_strand>
        <mrna_strand>ACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703834" ref_strand="+" ref_description="SGN-E703834 [FA22CD07]">
      <seq>attcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaattagttgtttgctaattgtaaattacaagaacattataatatatatgagttattggtattggaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41727" stop="40220"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41427" g_stop="40507" g_length="921"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="921" r_length="921" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E703834" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>921</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703834" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41427" e_stop="40507"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAG-TATTGTTATTGGATGCATTAAAGAGC</genome_strand>
        <mrna_strand>ATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTT-AAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATTATAATATATATGAGTTATTGGTATTGGAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732102" ref_strand="+" ref_description="SGN-E732102 [LB01BB06]">
      <seq>ctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41625" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41325" g_stop="40507" g_length="819"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="819" r_length="819" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E732102" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>819</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732102" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41325" e_stop="40507"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGC</genome_strand>
        <mrna_strand>CTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733014" ref_strand="+" ref_description="SGN-E733014 [LB03DA03]">
      <seq>ctttaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaagtgaagtttttaaaaaattagtgtttgctaattgtnaattacaagaccttaataatatatatgagtattgttattggatgcattaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41726" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41427" g_stop="40509" g_length="919"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="917" r_length="917" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733014" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>919</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733014" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41427" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CTTTAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGG-AAGTGAAGTTTTTAAAAAATTAG-TGTTTGCTAATTGTNAATTACAAGACCTTAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732949" ref_strand="+" ref_description="SGN-E732949 [LB03CC10]">
      <seq>tctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaattagttgtttgctaattgtaatttacaagaacttataatatatatgagtattgtttatggatgaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41716" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41416" g_stop="40509" g_length="908"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="906" r_length="906" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E732949" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>908</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732949" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41416" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTT-AAAAATTAGTTGTTTGCTAATTGTAATTTACAAGAAC-TTATAATATATATGAGTATTGTTTATGGATGAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733053" ref_strand="+" ref_description="SGN-E733053 [LB03DD07]">
      <seq>actctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattggtattggatgcattaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41642" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41342" g_stop="40509" g_length="834"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="834" r_length="834" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733053" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>834</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733053" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41342" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>ACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGGTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E577594" ref_strand="-" ref_description="SGN-E577594 [LE15AE04]">
      <seq>ctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttgtaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatatcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41492" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41192" g_stop="40509" g_length="684"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="684" r_length="684" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="685" polyA_stop="697"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E577594" ref_strand="-">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>684</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E577594" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="41192" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGTAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATATCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733351" ref_strand="+" ref_description="SGN-E733351 [LB04CE12]">
      <seq>ccattgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41453" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41154" g_stop="40509" g_length="646"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="646" r_length="646" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733351" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>646</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733351" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41154" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CCATTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291918" ref_strand="+" ref_description="SGN-E291918 [cLET-7-E15]">
      <seq>ttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtggggggnccnnncccctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41302" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41002" g_stop="40509" g_length="494"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="505" r_length="505" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="506" polyA_stop="528"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291918" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291918" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41002" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT---GGG--------CCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>TTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGGGGNCCNNNCCCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E237069" ref_strand="+" ref_description="SGN-E237069 [cLEL-7-B13](-)">
      <seq>aacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccacaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41251" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40951" g_stop="40509" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="444" polyA_stop="455"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E237069" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>443</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E237069" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40951" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>AACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCACAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234930" ref_strand="+" ref_description="SGN-E234930 [cLEL-6-J21](-)">
      <seq>cccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41249" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40949" g_stop="40509" g_length="441"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="441" r_length="441" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="442" polyA_stop="453"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E234930" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>441</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E234930" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40949" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E236678" ref_strand="+" ref_description="SGN-E236678 [cLEL-7-B13](-)">
      <seq>tggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggatgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccacaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41241" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40941" g_stop="40509" g_length="433"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="433" r_length="433" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="434" polyA_stop="445"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E236678" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>433</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E236678" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40941" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>TGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGATGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCACAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234834" ref_strand="+" ref_description="SGN-E234834 [cLEL-6-J21](-)">
      <seq>catgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccacatctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41236" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40936" g_stop="40509" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="429" r_length="429" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="430" polyA_stop="441"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E234834" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E234834" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40936" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCAC-TCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACATCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345870" ref_strand="+" ref_description="SGN-E345870 [cTOF-24-C22]">
      <seq>tgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41212" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40912" g_stop="40509" g_length="404"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="404" r_length="404" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="405" polyA_stop="415"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345870" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40912" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>TGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217895" ref_strand="+" ref_description="SGN-E217895 [cLEL-23-P10](-)">
      <seq>ctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgtccgcattcaatgttcaagcaattgtcaccggaaagggtccattggagaaccttgctgaccaaagtgctaatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattgcatgcattaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41073" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40773" g_stop="40509" g_length="265"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="265" r_length="265" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="266" polyA_stop="276"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E217895" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>265</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E217895" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40773" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>CTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTCCGCATTCAATGTTCAAGCAATTGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCAAAGTGCTAATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGCATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278543" ref_strand="-" ref_description="SGN-E278543 [cLEL-2-F16]">
      <seq>tgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagagcataataatatatatgagtattgttattggatgcattaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41022" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40722" g_stop="40509" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="214" r_length="214" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="215" polyA_stop="227"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E278543" ref_strand="-">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>214</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278543" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="40722" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGA</genome_strand>
        <mrna_strand>TGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAGCATAATAATATATATGAGTATTGTTATTGGATGCATTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733365" ref_strand="+" ref_description="SGN-E733365 [LB04CG03]">
      <seq>cgaatacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccgggaagtgaagtttttaaaaaattanttgttgctaattgtaaattacaagaacctaataatatatatggagtattgttattggaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41743" stop="40220"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41448" g_stop="40511" g_length="938"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="938" r_length="938" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733365" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>938</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733365" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41448" e_stop="40511"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATAT-GAGTATTGTTATTGGATGCATTAAA</genome_strand>
        <mrna_strand>CGAATACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGGAAGTGAAGTTTTTAAAAAATTANTTG-TTGCTAATTGTAAATTACAAGAACCTAATAATATATATGGAGTATTGTTATTGGAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732257" ref_strand="+" ref_description="SGN-E732257 [LB01CG06]">
      <seq>gatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41192" stop="40220"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40892" g_stop="40511" g_length="382"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="382" r_length="382" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E732257" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>382</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732257" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40892" e_stop="40511"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAA</genome_strand>
        <mrna_strand>GATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735098" ref_strand="+" ref_description="SGN-E735098 [LB14BG02]">
      <seq>aggctgttacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcattancaaaaaaaaaaaaaaaaaccaaaacctcggggggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41430" stop="40213"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41133" g_stop="40513" g_length="621"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="621" r_length="621" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="624" polyA_stop="641"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735098" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735098" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41133" e_stop="40513"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTA</genome_strand>
        <mrna_strand>AGGCTGTTACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345898" ref_strand="+" ref_description="SGN-E345898 [cTOF-24-O20]">
      <seq>tgggcttgccaagttgtgttgatgggagccgatgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgacctcaaggtaaaagagatcaagattggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgcccccggaaagtgaagtttttaaaaaattatttgtttggtaattgtaaattacaggaacataatattatatatgagtatagttattgcatgcattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41212" stop="40214"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40912" g_stop="40513" g_length="400"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="400" r_length="400" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345898" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>400</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345898" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40912" e_stop="40513"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTA</genome_strand>
        <mrna_strand>TGGGCTTGCCAAGTTGTGTTGATGGGAGCCGATGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGACCTCAAGGTAAAAGAGATCAAGATTGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGCCCCCGGAAAGTGAAGTTTTTAAAAAATTATTTGTTTGGTAATTGTAAATTACAGGAACATAATATTATATATGAGTATAGTTATTGCATGCATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294399" ref_strand="+" ref_description="SGN-E294399 [cLET-14-C4]">
      <seq>ttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41265" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40965" g_stop="40517" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="450" polyA_stop="466"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294399" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294399" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40965" e_stop="40517"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGC</genome_strand>
        <mrna_strand>TTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E220617" ref_strand="+" ref_description="SGN-E220617 [cLEL-12-I9](-)">
      <seq>aaagcattttggctatctgggcttgccaagttgtgttataggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgaaccactgggccttgctgatgacccagaggcatatgctcagctcaaggtaaaagagatcacaaatggtagactttctatgttctccatgttcggattctttgttcaagcagatcgtctccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacataataatatatatgagtattgttattggatgaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41229" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40929" g_stop="40519" g_length="411"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="411" r_length="411" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="413" polyA_stop="431"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E220617" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>411</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E220617" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40929" e_stop="40519"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGC-TATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGAT</genome_strand>
        <mrna_strand>AAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTT-ATAGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGAACCACTGGGCCTTGCTGATGACCCAGAGGCATATGCTCAGCTCAAGGTAAAAGAGATCACAAATGGTAGACTTTCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCAGATCGTCTCCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E281592" ref_strand="-" ref_description="SGN-E281592 [cLEL-1-P2]">
      <seq>cattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaattgtaaattacaagaacatagggatatatatgagtattgttattgcgatgcaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41225" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40925" g_stop="40521" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="405" r_length="405" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="411" polyA_stop="436"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E281592" ref_strand="-">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281592" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="40925" e_stop="40521"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGG</genome_strand>
        <mrna_strand>CATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAGGGATATATATGAGTATTGTTATTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322463" ref_strand="+" ref_description="SGN-E322463 [cTOB-26-A20]">
      <seq>aatactcatatatattattatgttcttgtaatttacaattagcaaacaactaattttttaaaaacttcactttccggggacaaagtttgtggcgaaggcccaagcattgttattgactggatcagcgagatggtcagcaaggttctccaatggaccctttccggtgacgatagcttgaacaaagaatccgaacatggagaacatagcaagtctaccattcttgatctcttttaccttgagctcagcaaaagcctctgggtcatcagcaaggcccagtgggtcaaagctaccaccagggtagagtgggtcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccagatagccaaaatgctttgtgcatggaccaagcttgggtttcccaagtagtcaagtccaccctcgctgaaaatttgtgatccagccttgaaccatacagcttcaccgaacttaacaccattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctcccactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcacccagaaactcaccggtcaagtagcttggggattccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40229" stop="41505"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40529" g_stop="41205" g_length="677"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="677" r_length="677" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E322463" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E322463" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40529" e_stop="41205"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATACTCATATATATTATTATGTTCTTGTAATTTACAATTAGCAAACAACTAATTTTTTAAAAACTTCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCC</genome_strand>
        <mrna_strand>AATACTCATATATATTATTATGTTCTTGTAATTTACAATTAGCAAACAACTAATTTTTTAAAAACTTCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCCACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCCAGAAACTCACCGGTCAAGTAGCTTGGGGATTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322426" ref_strand="+" ref_description="SGN-E322426 [cTOB-26-A17]">
      <seq>aatactcatatatatcattatgttcttgtaatttacaattagcaaacaactaattttttaaaaacttcactttccggggacaaagtttgtggcgaaagcccaagcattgttattgactggatcagcgagatggtcagcaaggttctccaatggaccctttccggtgacgatagcttgaacaaagaatccgaacatggagaacatagcaagtctaccattcttgatctcttttaccttgagctcagcaaaagcctctgggtcatcatcaaagcccatcgggtcaaagctaccaccagggtagagtgtgtcaacaacctcaccaatacgcccaccagcaatacggtaaccctctacggctcccatcgacacatacttggcaagcccagatacccaaaatgctttgtgcatggaccaagcttgggtttcccacgtactcaagtccaccctcgctgaaaatttgtgatccagccttgaaccatacagcttctccgaactatacaccattactggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctccactcacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40229" stop="41410"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40529" g_stop="41110" g_length="582"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="582" r_length="582" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E322426" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>582</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E322426" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40529" e_stop="41110"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATACTCATATATATTATTATGTTCTTGTAATTTACAATTAGCAAACAACTAATTTTTTAAAAACTTCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACA-ACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACG</genome_strand>
        <mrna_strand>AATACTCATATATATCATTATGTTCTTGTAATTTACAATTAGCAAACAACTAATTTTTTAAAAACTTCACTTTCCGGGGACAAAGTTTGTGGCGAAAGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCATCAAAGCCCATCGGGTCAAAGCTACCACCAGGGTAGAGTGTGTCAACAACCTCACCAATACGCCCACCAGCAATACGGTAACCCTCTACGGCTCCCATCGACACATACTTGGCAAGCCCAGATACCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCACGTACTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCTCCGAACTATACACCATTACTGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCC-ACTCACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740188" ref_strand="+" ref_description="SGN-E740188 [LC20BG04]">
      <seq>gtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattagttgtttgctaatttgtaattacaagaancatataatatatatgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41731" stop="40233"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41431" g_stop="40533" g_length="899"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="899" r_length="899" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E740188" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>899</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740188" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41431" e_stop="40533"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAG</genome_strand>
        <mrna_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTTGTAATTACAAGAANCATATAATATATATGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730067" ref_strand="+" ref_description="SGN-E730067 [LA22DH01]">
      <seq>ctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttggggcttcgccacaactttgtcccccgaaagtgaagtttttaaaaaattagntggttgctaattgtaatttaccagaacataataatatatattgagtatggtatttgaagaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41737" stop="40209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41437" g_stop="40538" g_length="900"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="899" r_length="899" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="917" polyA_stop="933"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730067" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>900</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41437" e_stop="40538"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATAT</genome_strand>
        <mrna_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGGCTTCGCCAC-AACTTTGTCCCCCGAAAGTGAAGTTTTTAAAAAATTAGNTGGTTGCTAATTGTAATTTACCAGAACATAATAATATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340029" ref_strand="+" ref_description="SGN-E340029 [cTOF-3-K2]">
      <seq>tgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtcccccggaagtgaagtttttaaaaaattagttgtttgctaattgtaaattaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41595" stop="40255"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41295" g_stop="40555" g_length="741"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="741" r_length="741" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340029" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>741</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41295" e_stop="40555"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACA</genome_strand>
        <mrna_strand>TGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCCGGAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734106" ref_strand="+" ref_description="SGN-E734106 [LB11DB12]">
      <seq>cgctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaattagttgtttgctaattgtaaattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41695" stop="40256"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41396" g_stop="40556" g_length="841"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="840" r_length="840" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E734106" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>841</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E734106" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41396" e_stop="40556"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTAC</genome_strand>
        <mrna_strand>CGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTT-AAAAATTAGTTGTTTGCTAATTGTAAATTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731836" ref_strand="+" ref_description="SGN-E731836 [LA28BC09]">
      <seq>caagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41724" stop="40278"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41424" g_stop="40578" g_length="847"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="847" r_length="847" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731836" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>847</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731836" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41424" e_stop="40578"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAG</genome_strand>
        <mrna_strand>CAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731814" ref_strand="+" ref_description="SGN-E731814 [LA28BA10]">
      <seq>ctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcggcacaaactttgtccccggaaagtgaagttttttaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41737" stop="40282"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41437" g_stop="40581" g_length="857"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="857" r_length="857" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731814" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>857</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41437" e_stop="40581"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAAT</genome_strand>
        <mrna_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGGCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTTAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E216783" ref_strand="+" ref_description="SGN-E216783 [cLEL-1-O2](-)">
      <seq>actgtcatcaaacgaccagagacatgagaacgttttaagagattcattttccggggacaaagtttgtggcgaaagcccaggcattgttgttaacggggtctgcaaggtggtcagcaaggttctccaatggaccctttccggtgacaatagcttgaacaaagaatccaaacatagagaacatagcaagtctaccgttcttgatctcctttaccttgagctcagcaaatgcctctgggtcttcagcaaggcctaatgggtcgaagctgccaccagggtagagtgggtcgacaacctcaccaagaggtccaccagcaatacggtatccctcaacagctcccatcaacacaacttggcaagcccagatggccaagatgctttgtgcatggaccaagcttgggttgcccaagtagtcaagtccaccttcactgaagatctgggatccggccttgaaccacacagcctcaccgaacttgacgccatcaaaaaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40280" stop="41333"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40594" g_stop="41040" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="489" r_length="447" r_score="0.902"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E216783" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>447</cumulative_length_of_scored_exons>
        <coverage percentage="0.914" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E216783" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40594" e_stop="41040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCA</genome_strand>
        <mrna_strand>TTCATTTTCCGGGGACAAAGTTTGTGGCGAAAGCCCAGGCATTGTTGTTAACGGGGTCTGCAAGGTGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATAGAGAACATAGCAAGTCTACCGTTCTTGATCTCCTTTACCTTGAGCTCAGCAAATGCCTCTGGGTCTTCAGCAAGGCCTAATGGGTCGAAGCTGCCACCAGGGTAGAGTGGGTCGACAACCTCACCAAGAGGTCCACCAGCAATACGGTATCCCTCAACAGCTCCCATCAACACAACTTGGCAAGCCCAGATGGCCAAGATGCTTTGTGCATGGACCAAGCTTGGGTTGCCCAAGTAGTCAAGTCCACCTTCACTGAAGATCTGGGATCCGGCCTTGAACCACACAGCCTCACCGAACTTGACGCCATCAAAAAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726416" ref_strand="+" ref_description="SGN-E726416 [LA11DA05]">
      <seq>aacaacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccaacctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggagattacggatgggacactgctggactttcagctgaccctgaaacattcactaagaaccgagagttggaggttattcattgtaaatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccatttggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttccccacaaactttgtccccggaaaataaaaatcttaaaacattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41747" stop="40280"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41447" g_stop="40599" g_length="849"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="850" r_length="850" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726416" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>849</cumulative_length_of_scored_exons>
        <coverage percentage="0.975" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726416" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41447" e_stop="40599"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCA-TTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</genome_strand>
        <mrna_strand>AACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAACCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGAGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCACTAAGAACCGAGAGTTGGAGGTTATTCATTGTAAATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCCCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342962" ref_strand="+" ref_description="SGN-E342962 [cTOF-11-B18]">
      <seq>tggtatggccctgaccgtgttaagtacttgggcccattctctggtgagtccccaagctacttgaccggtgaattccctggtgattacgggtgggataccgctggactttcagcagaccctgaaacttttgccaagaaccgtgaacttgaggtgatccactgcagatgggctatgcttggtgctcttggatgtgtcttccctgagctcttggcccgtaatggtgtcaagttcggtgaggctgtgtggttcaaggccggatcccagatcttcagtgaaggtggacttgactacttgggcaacccaagcttggtccatgcacaaagcatcttggccatctgggcttgccaagttgtgttgatgggagctgttgagggataccgtattgctggtggacctcttggtgaggttgtcgacccactctaccctggtggcagcttcgacccattaggccttgctgaagacccagaggcatttgctgagctcaaggtaaaggagatcaagaacggtagacttgctatgttctctatgtttggattctttgttcaagctattgtcaccggaaagggtccattggagaaccttgctgaccaccttgcagaccccgtaaacacaatgcctgggctttcgccacaaactttgtccccggaaaatgaatctcttaaaacgtnctcaagtctctggtcgtttgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41548" stop="40284"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41248" g_stop="40599" g_length="650"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="649" r_length="649" r_score="0.906"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342962" ref_strand="+">
        <total_alignment_score>0.906</total_alignment_score>
        <cumulative_length_of_scored_exons>650</cumulative_length_of_scored_exons>
        <coverage percentage="0.939" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342962" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41248" e_stop="40599"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</genome_strand>
        <mrna_strand>TGGTATGGCCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAGTCCCCAAGCTACTTGACCGGTGAATTCCCTGGTGATTACGGGTGGGATACCGCTGGACTTTCAGCAGACCCTGAAACTTTTGCCAAGAACCGTGAACTTGAGGTGATCCACTGCAGATGGGCTATGCTTGGTGCTCTTGGATGTGTCTTCCCTGAGCTCTTGGCCCGTAATGGTGTCAAGTTCGGTGAGGCTGTGTGGTTCAAGGCCGGATCCCAGATCTTCAGTGAAGGTGGACTTGACTACTTGGGCAACCCAAGCTTGGTCCATGCACAAAGCATCTTGGCCATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAGGGATACCGTATTGCTGGTGGACCTCTTGGTGAGGTTGTCGACCCACTCTACCCTGGTGGCAGCTTCGACCCATTAGGCCTTGCTGAAGACCCAGAGGCATTTGCTGAGCTCAAGGTAAAGGAGATCAAGAACGGTAGACTTGCTATGTTCTCTATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCACCTTGCAGACCCCGT-AAACACAATGCCTGGGCTTTCGCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282066" ref_strand="+" ref_description="SGN-E282066 [cLES-2-H18]">
      <seq>ttggatgtgtcttccctgagctattggcccgtaacggtgtcaagttcggtgaggctgtgtggttcaaggccggatcccagatcttcagcgagggaggacttgactacttgggcaacccaagcttggtccatgcacagagcatcttggccatctgggcttgccaagttgtcttgatgggagccgttgaaggttaccgtattgctggtggacctcttggtgaggttgtcgacccactctaccccggtggcagcttcgacccattaggccttgctgaagaccccgaggcatttgctgagctcaaggtaaaggagattaagaacggcagacttgctatgttctctatgttcggattctttgttcaggccattgttaccggaaagggtccattggagaaccttgctgaccaccttgcagaccccgttaacaacaacgcttgggctttcgccacaaactttgtccccggaaaatgaatatcataatatattttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41364" stop="40290"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41064" g_stop="40599" g_length="466"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="466" r_length="466" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282066" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>466</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282066" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41064" e_stop="40599"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</genome_strand>
        <mrna_strand>TTGGATGTGTCTTCCCTGAGCTATTGGCCCGTAACGGTGTCAAGTTCGGTGAGGCTGTGTGGTTCAAGGCCGGATCCCAGATCTTCAGCGAGGGAGGACTTGACTACTTGGGCAACCCAAGCTTGGTCCATGCACAGAGCATCTTGGCCATCTGGGCTTGCCAAGTTGTCTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGACCTCTTGGTGAGGTTGTCGACCCACTCTACCCCGGTGGCAGCTTCGACCCATTAGGCCTTGCTGAAGACCCCGAGGCATTTGCTGAGCTCAAGGTAAAGGAGATTAAGAACGGCAGACTTGCTATGTTCTCTATGTTCGGATTCTTTGTTCAGGCCATTGTTACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCACCTTGCAGACCCCGTTAACAACAACGCTTGGGCTTTCGCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726635" ref_strand="+" ref_description="SGN-E726635 [LA12BF03]">
      <seq>gtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtcccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41719" stop="40304"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41419" g_stop="40604" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726635" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726635" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41419" e_stop="40604"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCC</genome_strand>
        <mrna_strand>GTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346376" ref_strand="+" ref_description="SGN-E346376 [cTOF-23-O17]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataccatgcttgggcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41718" stop="40324"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41418" g_stop="40624" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="794" r_length="794" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346376" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41418" e_stop="40624"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCT</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAAT-ACCATGCTTGGGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282204" ref_strand="+" ref_description="SGN-E282204 [cLES-4-C15]">
      <seq>tgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaacttgctgaccatcttgctgatccagtcaataacaatgcttgggcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41383" stop="40324"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41083" g_stop="40624" g_length="460"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="460" r_length="460" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282204" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282204" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41083" e_stop="40624"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCT</genome_strand>
        <mrna_strand>TGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAAACTTGCTGACCATCTTGCTGATCCAGTCAATAACAATGCTTGGGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342870" ref_strand="+" ref_description="SGN-E342870 [cTOF-7-N24]">
      <seq>accatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacatgcttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41686" stop="40326"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41386" g_stop="40626" g_length="761"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="761" r_length="761" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342870" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>761</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41386" e_stop="40626"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGC</genome_strand>
        <mrna_strand>ACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAAC-ATGCTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292879" ref_strand="+" ref_description="SGN-E292879 [cLET-11-F15]">
      <seq>tctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggaaaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41511" stop="40326"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41211" g_stop="40626" g_length="586"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="586" r_length="586" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E292879" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>586</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292879" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41211" e_stop="40626"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGC</genome_strand>
        <mrna_strand>TCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAAAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729846" ref_strand="+" ref_description="SGN-E729846 [LA22BB10]">
      <seq>ccttttctttttgacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccgggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41742" stop="40332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41443" g_stop="40632" g_length="812"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="812" r_length="812" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729846" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729846" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41443" e_stop="40632"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACC-GGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGC</genome_strand>
        <mrna_strand>CCTTTTCTTTTTG-ACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731871" ref_strand="+" ref_description="SGN-E731871 [LA28BF11]">
      <seq>tgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41732" stop="40344"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41432" g_stop="40644" g_length="789"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="789" r_length="789" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731871" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731871" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41432" e_stop="40644"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGT</genome_strand>
        <mrna_strand>TGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335462" ref_strand="+" ref_description="SGN-E335462 [cTOE-2-C11]">
      <seq>gacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41455" stop="40349"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41155" g_stop="40649" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E335462" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E335462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41155" e_stop="40649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGAT</genome_strand>
        <mrna_strand>GACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296627" ref_strand="+" ref_description="SGN-E296627 [cLET-39-N14]">
      <seq>gtgtaaagtttggtgaggctgtgtggttcaaggccggatcccagatcttcagcgagggtggacttgactacttgggcaacccaagcttggttcatgcacaaagcatcttggccatttgggcttgccaagttgtgttgatgggagctgttgaaggttaccgtattgctggtggacctcttggtgaggttgtcgacccactctaccccggtggaagcttcgacccattaggccttgctgaagaccccgaggcatttgctgagctcaaggtaaaggagatcaagaacggtagacttgctatgttctctatgtttggattctttgttcaagccattgttaccggaaaaggtccattggagaaccttgctgatcaccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41328" stop="40353"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41028" g_stop="40653" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296627" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296627" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41028" e_stop="40653"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGC</genome_strand>
        <mrna_strand>GTGTAAAGTTTGGTGAGGCTGTGTGGTTCAAGGCCGGATCCCAGATCTTCAGCGAGGGTGGACTTGACTACTTGGGCAACCCAAGCTTGGTTCATGCACAAAGCATCTTGGCCATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAAGGTTACCGTATTGCTGGTGGACCTCTTGGTGAGGTTGTCGACCCACTCTACCCCGGTGGAAGCTTCGACCCATTAGGCCTTGCTGAAGACCCCGAGGCATTTGCTGAGCTCAAGGTAAAGGAGATCAAGAACGGTAGACTTGCTATGTTCTCTATGTTTGGATTCTTTGTTCAAGCCATTGTTACCGGAAAAGGTCCATTGGAGAACCTTGCTGATCACCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346244" ref_strand="+" ref_description="SGN-E346244 [cTOF-23-I12]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41718" stop="40395"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41418" g_stop="40695" g_length="724"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="724" r_length="724" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346244" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346244" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41418" e_stop="40695"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGT</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296577" ref_strand="+" ref_description="SGN-E296577 [cLET-39-E15]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccanaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41646" stop="40418"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41346" g_stop="40718" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="629" r_length="629" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296577" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296577" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41346" e_stop="40718"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTC</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCANAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297825" ref_strand="+" ref_description="SGN-E297825 [cLET-38-B4]">
      <seq>gctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41584" stop="40421"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41284" g_stop="40721" g_length="564"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="564" r_length="564" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297825" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297825" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41284" e_stop="40721"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATG</genome_strand>
        <mrna_strand>GCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731108" ref_strand="+" ref_description="SGN-E731108 [LA26AF11]">
      <seq>ctatattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40422"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41431" g_stop="40722" g_length="710"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="710" r_length="710" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731108" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731108" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41431" e_stop="40722"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>CTATATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290975" ref_strand="+" ref_description="SGN-E290975 [cLET-8-O2]">
      <seq>tgatccactgcagatgggctatgcttggtgctcttggatgtgtcttccctgagctcttggcccgtaatggtgtcaagttcggtgaggctgtgtggttcaaggccggatcccagatcttcagtgaaggtggacttgactacttgggcaacccaagcttggtccatgcacaaagcatcttggccatctgggcttgccaagttgtgttgatgggagctgttgagggataccgtattgctggtggacctcttggtgaggttgtcgacccactctaccctggtggcagcttcgacccattaggccttgctgaagacccagaggcatttgctgagctcaaggtaaatgagatcaagaacggtagacttgctatgctctctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41397" stop="40422"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41097" g_stop="40722" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290975" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290975" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41097" e_stop="40722"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>TGATCCACTGCAGATGGGCTATGCTTGGTGCTCTTGGATGTGTCTTCCCTGAGCTCTTGGCCCGTAATGGTGTCAAGTTCGGTGAGGCTGTGTGGTTCAAGGCCGGATCCCAGATCTTCAGTGAAGGTGGACTTGACTACTTGGGCAACCCAAGCTTGGTCCATGCACAAAGCATCTTGGCCATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAGGGATACCGTATTGCTGGTGGACCTCTTGGTGAGGTTGTCGACCCACTCTACCCTGGTGGCAGCTTCGACCCATTAGGCCTTGCTGAAGACCCAGAGGCATTTGCTGAGCTCAAGGTAAATGAGATCAAGAACGGTAGACTTGCTATGCTCTCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347139" ref_strand="+" ref_description="SGN-E347139 [cTOF-25-I15]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgtttgaggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaggtaaaagagatcaggatggtagacttgctatgttctcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41718" stop="40423"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41418" g_stop="40723" g_length="696"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="694" r_length="694" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347139" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347139" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41418" e_stop="40723"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCA</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTTGAGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC-AGGTAAAAGAGATC-AGGATGGTAGACTTGCTATGTTCTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284084" ref_strand="+" ref_description="SGN-E284084 [cLER-13-M10]">
      <seq>tctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41560" stop="40427"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41260" g_stop="40727" g_length="534"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="534" r_length="534" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284084" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>534</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284084" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41260" e_stop="40727"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTC</genome_strand>
        <mrna_strand>TCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342361" ref_strand="+" ref_description="SGN-E342361 [cTOF-8-F20]">
      <seq>taccattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaagggtgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggctnttgctgagctcaaggtaaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40456"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41430" g_stop="40756" g_length="675"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="677" r_length="677" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342361" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>675</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342361" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41430" e_stop="40756"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TA-CATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAG</genome_strand>
        <mrna_strand>TACCATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGGTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTNTTGCTGAGCTCAAGGTAAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339843" ref_strand="+" ref_description="SGN-E339843 [cTOF-3-I3]">
      <seq>ttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgctgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41741" stop="40462"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41441" g_stop="40762" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339843" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339843" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41441" e_stop="40762"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGG</genome_strand>
        <mrna_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGCTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728033" ref_strand="+" ref_description="SGN-E728033 [LA16CA05]">
      <seq>ttctctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41741" stop="40465"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41441" g_stop="40765" g_length="677"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="677" r_length="677" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728033" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728033" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41441" e_stop="40765"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>TTCTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731057" ref_strand="+" ref_description="SGN-E731057 [LA26AA12]">
      <seq>gtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41731" stop="40466"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41431" g_stop="40766" g_length="666"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="666" r_length="666" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731057" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>666</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41431" e_stop="40766"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728668" ref_strand="+" ref_description="SGN-E728668 [LA18CC05]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41723" stop="40466"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41423" g_stop="40766" g_length="658"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="658" r_length="658" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728668" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>658</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728668" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41423" e_stop="40766"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728763" ref_strand="+" ref_description="SGN-E728763 [LA18DE04]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41723" stop="40467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41423" g_stop="40767" g_length="657"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="657" r_length="657" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728763" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>657</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728763" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41423" e_stop="40767"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344666" ref_strand="+" ref_description="SGN-E344666 [cTOF-14-B24]">
      <seq>acattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccannagcttttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41729" stop="40484"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41429" g_stop="40771" g_length="659"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="659" r_length="659" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344666" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344666" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41429" e_stop="40771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>ACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCANNAGCTTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E202855" ref_strand="+" ref_description="SGN-E202855 [cLEB-1-M22]">
      <seq>gcacgaggtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41731" stop="40487"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41438" g_stop="40787" g_length="652"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E202855" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>652</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202855" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41438" e_stop="40787"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGAC</genome_strand>
        <mrna_strand>GCACGAGGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348955" ref_strand="+" ref_description="SGN-E348955 [cTOF-29-K24]">
      <seq>aacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatgggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41744" stop="40489"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41444" g_stop="40789" g_length="656"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="658" r_length="658" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348955" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>656</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41444" e_stop="40789"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCAT-GGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</genome_strand>
        <mrna_strand>AACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347145" ref_strand="+" ref_description="SGN-E347145 [cTOF-25-K17]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtgggtagcttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41723" stop="40489"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41423" g_stop="40789" g_length="635"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="635" r_length="635" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347145" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347145" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41423" e_stop="40789"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGT-GGTAGCTTTGACCCACTGGGCCTTGCTGATG</genome_strand>
        <mrna_strand>AAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGGTAGC-TTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E270382" ref_strand="+" ref_description="SGN-E270382 [cLEM-1-L3]">
      <seq>agtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41720" stop="40489"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41420" g_stop="40789" g_length="632"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="632" r_length="632" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E270382" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270382" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41420" e_stop="40789"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728767" ref_strand="+" ref_description="SGN-E728767 [LA18DE08]">
      <seq>caacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctatgacccactgggccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41745" stop="40494"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41445" g_stop="40794" g_length="652"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728767" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>652</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41445" e_stop="40794"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGC</genome_strand>
        <mrna_strand>CAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTATGACCCACTGGGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290888" ref_strand="+" ref_description="SGN-E290888 [cLET-10-L7]">
      <seq>tttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41734" stop="40508"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41434" g_stop="40808" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290888" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41434" e_stop="40808"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGAC</genome_strand>
        <mrna_strand>TTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728358" ref_strand="+" ref_description="SGN-E728358 [LA17CC10]">
      <seq>ccttattctacttctataagtggctacttctaccatggctctttcttcctctacatttgccggataggcggtataaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggcgaagctgtatggttctgagctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtacatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgtagacccactctaccctggtggtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41715" stop="40515"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41416" g_stop="40815" g_length="602"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="604" r_length="604" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728358" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>602</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41416" e_stop="40815"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCATTCTACTTCTATAA-TGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGT-TAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAG</genome_strand>
        <mrna_strand>CCTTATTCTACTTCTATAAGTGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGATAGGCGGTATAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGCGAAGCTGTATGGTTCTGAGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTACATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTAGACCCACTCTACCCTGGTGGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295114" ref_strand="+" ref_description="SGN-E295114 [cLET-20-E4]">
      <seq>ttttgtacattcaagagtttcttattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41735" stop="40522"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41435" g_stop="40822" g_length="614"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="614" r_length="614" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295114" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295114" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41435" e_stop="40822"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTG</genome_strand>
        <mrna_strand>TTTTGTACATTCAAGAGTTTCTTATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E362510" ref_strand="+" ref_description="SGN-E362510 [cLPP-1-E3]">
      <seq>ttcttacaatggctgcttctacaatggctctttcctcctctacctttgccggaaaggcagtgaaactctcaccatcttcctctgaaatcaccggaaatgggagaatcaccatgaggaagactgctgccaaggcaaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatccccaagctacttgactggtgagttccctggtgactacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgaattggaggtgattcactgcagatgggccatgcttggagctcttggatgcgtcttccctgagcttttggcccgtaacggtgtcaagtttggtgaagctgtatggttcaaggctggatcccaaattttcagcgagggtggactcgactacttgggaaacccaagcttggtccatgcacaaagcatcttggctatttgggcttgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41705" stop="40548"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41405" g_stop="40848" g_length="558"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="559" r_length="559" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E362510" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>558</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E362510" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41405" e_stop="40848"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>TTCTTACAATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTTGCCGGAAAGGCAGTGAAACTCTCACCATCTTCCTCTGAAATCACCGGAAATGGGAGAATCACCATGAGGAAGACTGCTGCCAAGGCAAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCCCCAAGCTACTTGACTGGTGAGTTCCCTGGTGACTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAATTGGAGGTGATTCACTGCAGATGGGCCATGCTTGGAGCTCTTGGATGCGTCTTCCCTGAGCTTTTGGCCCGTAACGGTGTCAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCCCAAATTTTCAGCGAGGGTGGACTCGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATCTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343235" ref_strand="+" ref_description="SGN-E343235 [cTOF-17-A12]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttganggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41718" stop="40549"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41418" g_stop="40849" g_length="570"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="570" r_length="570" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343235" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>570</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343235" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41418" e_stop="40849"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGANGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346513" ref_strand="+" ref_description="SGN-E346513 [cTOF-28-C11]">
      <seq>tttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgcccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41740" stop="40552"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41440" g_stop="40852" g_length="589"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="590" r_length="590" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346513" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>589</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346513" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41440" e_stop="40852"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTG-CCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTC</genome_strand>
        <mrna_strand>TTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291459" ref_strand="+" ref_description="SGN-E291459 [cLET-2-B21]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41646" stop="40565"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41346" g_stop="40865" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="482" r_length="482" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291459" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>482</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291459" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41346" e_stop="40865"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATT</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295570" ref_strand="+" ref_description="SGN-E295570 [cLET-23-B14]">
      <seq>ccccaagctacttgaccggtgaattccctggtgactacggctgggataccgctggactttcagcagaccctgaaacttttgccaagaaccgtgaacttgaggtgatccactgcagatgggctatgcttggtgctcttggatgtgtcttccctgagctattggcccgtaatggtgtcaagttcggtgaggctgtgtggttcaaggctggatcccagatcttcagcgagggtggacttgattacttgggcaacccaagcttggtccatgcacaaagcatcttggccatctgggcttgccaagttgtgttgatgggagccgttgagggatac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41499" stop="40571"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41199" g_stop="40871" g_length="329"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="329" r_length="329" r_score="0.903"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295570" ref_strand="+">
        <total_alignment_score>0.903</total_alignment_score>
        <cumulative_length_of_scored_exons>329</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295570" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41199" e_stop="40871"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTAC</genome_strand>
        <mrna_strand>CCCCAAGCTACTTGACCGGTGAATTCCCTGGTGACTACGGCTGGGATACCGCTGGACTTTCAGCAGACCCTGAAACTTTTGCCAAGAACCGTGAACTTGAGGTGATCCACTGCAGATGGGCTATGCTTGGTGCTCTTGGATGTGTCTTCCCTGAGCTATTGGCCCGTAATGGTGTCAAGTTCGGTGAGGCTGTGTGGTTCAAGGCTGGATCCCAGATCTTCAGCGAGGGTGGACTTGATTACTTGGGCAACCCAAGCTTGGTCCATGCACAAAGCATCTTGGCCATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGATAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293060" ref_strand="+" ref_description="SGN-E293060 [cLET-12-C2]">
      <seq>agtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41720" stop="40583"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41420" g_stop="40883" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293060" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41420" e_stop="40883"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284421" ref_strand="+" ref_description="SGN-E284421 [cLER-16-F11]">
      <seq>gtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41731" stop="40584"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41431" g_stop="40884" g_length="548"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="548" r_length="548" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284421" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284421" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41431" e_stop="40884"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>GTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297771" ref_strand="+" ref_description="SGN-E297771 [cLET-38-G12]">
      <seq>tttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgcttaaaacccgggagtggaaggtttttcatggaaaatggcccagcctggggcctctgggatgtgatttccccaaccttttggcccgtattggggttaagtccggggaacctgtttggttaagggttggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41736" stop="40586"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41436" g_stop="40886" g_length="551"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="552" r_length="552" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297771" ref_strand="+">
        <total_alignment_score>0.944</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297771" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41436" e_stop="40886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGC-TAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTTAAAACCCGGGAGTGGAAGGTTTTTCATGGAAAATGGCCCAGCCTGGGGCCTCTGGGATGTGATTTCCCCAACCTTTTGGCCCGTATTGGGGTTAAGTCCGGGGAACCTGTTTGGTTAAGGGTTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725580" ref_strand="+" ref_description="SGN-E725580 [LA04AE06]">
      <seq>ctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctnggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41737" stop="40587"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41437" g_stop="40887" g_length="551"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="551" r_length="551" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725580" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41437" e_stop="40887"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>CTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTNGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319580" ref_strand="+" ref_description="SGN-E319580 [cTOB-15-F8]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40587"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41430" g_stop="40887" g_length="544"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="544" r_length="544" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319580" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>544</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41430" e_stop="40887"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320943" ref_strand="+" ref_description="SGN-E320943 [cTOB-13-E20]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagccttctctggtcgcccatggtatggtcctgaccgtgttaagtacttgggaccattctctgcggaatccccaaactacttgaccggagaatttcctggtgattacggatgggacactgctggactttcaactgaccctgaaacattctctaacaaccgtgagttggaggttattcattgtatatgggccatgcttggtgctcttgaatgtgtattccccgagcttttggcccgtaatggtgactaacttcgctgaagctgtatggttcaaggctgcatcacaaattttcaccgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41430" g_stop="40901" g_length="530"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="531" r_length="531" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E320943" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>530</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320943" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41430" e_stop="40901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTG-TTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAA</genome_strand>
        <mrna_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTTCTCTGGTCGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGCGGAATCCCCAAACTACTTGACCGGAGAATTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAACTGACCCTGAAACATTCTCTAACAACCGTGAGTTGGAGGTTATTCATTGTATATGGGCCATGCTTGGTGCTCTTGAATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGACTAACTTCGCTGAAGCTGTATGGTTCAAGGCTGCATCACAAATTTTCACCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728971" ref_strand="+" ref_description="SGN-E728971 [LA19CC03]">
      <seq>tgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgcccttgcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41732" stop="40602"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41432" g_stop="40902" g_length="531"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="531" r_length="531" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728971" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>531</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728971" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41432" e_stop="40902"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCA</genome_strand>
        <mrna_strand>TGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGCCCTTGCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291754" ref_strand="+" ref_description="SGN-E291754 [cLET-6-J4]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41735" stop="40604"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41435" g_stop="40904" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="532" r_length="532" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291754" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291754" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41435" e_stop="40904"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGC</genome_strand>
        <mrna_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293135" ref_strand="+" ref_description="SGN-E293135 [cLET-12-J9]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41735" stop="40607"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41435" g_stop="40907" g_length="529"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="529" r_length="529" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293135" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>529</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293135" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41435" e_stop="40907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCT</genome_strand>
        <mrna_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292029" ref_strand="+" ref_description="SGN-E292029 [cLET-7-P1]">
      <seq>aacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41744" stop="40608"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41444" g_stop="40908" g_length="537"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="537" r_length="537" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E292029" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>537</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41444" e_stop="40908"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</genome_strand>
        <mrna_strand>AACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293541" ref_strand="+" ref_description="SGN-E293541 [cLET-15-D13]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41735" stop="40608"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41435" g_stop="40908" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293541" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293541" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41435" e_stop="40908"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</genome_strand>
        <mrna_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293542" ref_strand="+" ref_description="SGN-E293542 [cLET-15-D13](-)">
      <seq>gcccagatagccaaaatgctttgtgcatggaccaagcttgggtttcccaagtagtcaagtccaccctcgctgaaaatttgtgatccagccttgaaccatacagcttcaccgaacttaacaccattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcaccaggaaactcaccggtcaagtagcttggggattccccagagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaggctggcttggccttggtagcagttttcctcatggtgactctcccatttccggtgatttcagaagaagatggggagagtttaaccgcctttccggcaaatgtagaggaagaaagagccatggtagaagtagccattatagaagtagaatgagaaactcttgaatgtacaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40608" stop="41735"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40908" g_stop="41435" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293542" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293542" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40908" e_stop="41435"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGCAAATGTAGAGGAAGAAAGAGCCATGGTAGAAGTAGCCATTATAGAAGTAGAATGAGAAACTCTTGAATGTACAAAA</genome_strand>
        <mrna_strand>GCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGCAAATGTAGAGGAAGAAAGAGCCATGGTAGAAGTAGCCATTATAGAAGTAGAATGAGAAACTCTTGAATGTACAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286710" ref_strand="+" ref_description="SGN-E286710 [cLES-14-D23]">
      <seq>ttgtacattcaagagtctctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggctaaactctgcccatcttcttctgaaatcaccggaaatgggagagtcaccatgatgaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgcgaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattctctaagaaccgtgagttggaggttattcattgaagatgggccatgcttggtgctcttggatgcgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacacattttcagcgagggtggactagactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41733" stop="40608"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41433" g_stop="40908" g_length="526"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="526" r_length="526" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E286710" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E286710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41433" e_stop="40908"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</genome_strand>
        <mrna_strand>TTGTACATTCAAGAGTCTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGCTAAACTCTGCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGATGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGCGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCTCTAAGAACCGTGAGTTGGAGGTTATTCATTGAAGATGGGCCATGCTTGGTGCTCTTGGATGCGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACACATTTTCAGCGAGGGTGGACTAGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278222" ref_strand="+" ref_description="SGN-E278222 [cLER-9-G19]">
      <seq>tcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41674" stop="40608"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41374" g_stop="40908" g_length="467"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="467" r_length="467" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E278222" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278222" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41374" e_stop="40908"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</genome_strand>
        <mrna_strand>TCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725991" ref_strand="+" ref_description="SGN-E725991 [LA08DH03]">
      <seq>ttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacanagcattttggctatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41741" stop="40613"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41441" g_stop="40913" g_length="529"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="529" r_length="529" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725991" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>529</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41441" e_stop="40913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATC</genome_strand>
        <mrna_strand>TTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACANAGCATTTTGGCTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283909" ref_strand="+" ref_description="SGN-E283909 [cLER-13-I22]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40613"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41430" g_stop="40913" g_length="518"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="518" r_length="518" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283909" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>518</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41430" e_stop="40913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATC</genome_strand>
        <mrna_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294021" ref_strand="+" ref_description="SGN-E294021 [cLET-13-L18]">
      <seq>tctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41716" stop="40615"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41416" g_stop="40915" g_length="502"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="502" r_length="502" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294021" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>502</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294021" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41416" e_stop="40915"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729066" ref_strand="+" ref_description="SGN-E729066 [LA19DE04]">
      <seq>aagagtttctgattcctacttctataatggctacttactaccatggctctttcttcctctacattggccggaaaggcggttaaactcctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggatcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgccaagttcggtgaacctgtatggttcaaggctgcatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcgcggagcattttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41723" stop="40619"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41423" g_stop="40919" g_length="505"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="509" r_length="509" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729066" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729066" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41423" e_stop="40919"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTTCTCATT-CTACTTCTATAATGGCTACTT-CTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTC-TCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGG-TCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTG</genome_strand>
        <mrna_strand>AAGAGTTTCTGATTCCTACTTCTATAATGGCTACTTACTACCATGGCTCTTTCTTCCTCTACATTGGCCGGAAAGGCGGTTAAACTCCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGATCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGCCAAGTTCGGTGAACCTGTATGGTTCAAGGCTGCATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCGCGGAGCATTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293127" ref_strand="+" ref_description="SGN-E293127 [cLET-12-H3]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41646" stop="40619"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41346" g_stop="40919" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293127" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293127" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41346" e_stop="40919"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTG</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295571" ref_strand="+" ref_description="SGN-E295571 [cLET-23-B16]">
      <seq>tgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41624" stop="40620"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41324" g_stop="40920" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="405" r_length="405" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295571" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295571" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41324" e_stop="40920"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTT</genome_strand>
        <mrna_strand>TGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289453" ref_strand="+" ref_description="SGN-E289453 [cLET-3-D24]">
      <seq>tttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggaccattctctggggaatccccaagctacttgaccggcgagtttcctggagattaccgatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggctcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41734" stop="40623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41434" g_stop="40923" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="512" r_length="512" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E289453" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289453" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41434" e_stop="40923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCAT</genome_strand>
        <mrna_strand>TTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGCGAGTTTCCTGGAGATTACCGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGCTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282719" ref_strand="+" ref_description="SGN-E282719 [cLER-15-F4]">
      <seq>tttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41736" stop="40630"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41436" g_stop="40930" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282719" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41436" e_stop="40930"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCAC</genome_strand>
        <mrna_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292361" ref_strand="+" ref_description="SGN-E292361 [cLET-1-K22]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatgggtcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41730" stop="40648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41430" g_stop="40948" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="483" r_length="483" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E292361" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292361" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41430" e_stop="40948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACC</genome_strand>
        <mrna_strand>TACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGGTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725938" ref_strand="+" ref_description="SGN-E725938 [LA08DB12]">
      <seq>aacaacttttctttttgtacattcaagagtttctcatgctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgaatggtgttaagttcggtgaagctgnatggttcaaggctggatcacaaattttcacgnagggtggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41747" stop="40650"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41447" g_stop="40950" g_length="498"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="497" r_length="497" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725938" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>498</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41447" e_stop="40950"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>AACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATGCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCG-AATGGTGTTAAGTTCGGTGAAGCTGNATGGTTCAAGGCTGGATCACAAATTTTCACGNAGGGTGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288710" ref_strand="+" ref_description="SGN-E288710 [cLES-8-F3]">
      <seq>tttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41676" stop="40653"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41376" g_stop="40953" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="424" r_length="424" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288710" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41376" e_stop="40953"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E281608" ref_strand="+" ref_description="SGN-E281608 [cLER-14-C15]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41735" stop="40658"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41435" g_stop="40958" g_length="478"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="478" r_length="478" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E281608" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>478</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281608" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41435" e_stop="40958"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTAC</genome_strand>
        <mrna_strand>TTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323493" ref_strand="+" ref_description="SGN-E323493 [cTOC-7-M21]">
      <seq>gttcaagagtttctcattctacttctataggggctactgctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41726" stop="40695"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41427" g_stop="40995" g_length="433"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="433" r_length="433" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E323493" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>433</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41427" e_stop="40995"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGC</genome_strand>
        <mrna_strand>GTTCAAGAGTTTCTCATTCTACTTCTATAGGGGCTACTGCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284741" ref_strand="+" ref_description="SGN-E284741 [cLES-3-K1]">
      <seq>agtttctcattctacttctattatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41720" stop="40727"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41420" g_stop="41027" g_length="394"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="394" r_length="394" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284741" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>394</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284741" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41420" e_stop="41027"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGT</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATTATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278398" ref_strand="+" ref_description="SGN-E278398 [cLEL-2-F16](-)">
      <seq>accattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcaccaggaaactcaccggtcaagtagcttggggattccccagagaatggtcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggctggcttggccttggtagcagtcttcctcatggtgactctcccatttccggtgatttcagaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40727" stop="41627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41027" g_stop="41327" g_length="301"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="301" r_length="301" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E278398" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>301</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41027" e_stop="41327"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAA</genome_strand>
        <mrna_strand>ACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTCTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297909" ref_strand="+" ref_description="SGN-E297909 [cLET-38-K20]">
      <seq>ttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41733" stop="40733"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41433" g_stop="41033" g_length="401"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="401" r_length="401" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297909" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41433" e_stop="41033"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGT</genome_strand>
        <mrna_strand>TTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297599" ref_strand="+" ref_description="SGN-E297599 [cLET-28-F4]">
      <seq>agtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattaccgatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggagggtattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41720" stop="40736"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41420" g_stop="41036" g_length="385"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="385" r_length="385" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297599" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297599" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41420" e_stop="41036"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCC</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACCGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGGTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282612" ref_strand="+" ref_description="SGN-E282612 [cLER-15-I9]">
      <seq>tcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41714" stop="40741"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41414" g_stop="41041" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="374" r_length="374" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282612" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>374</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282612" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41414" e_stop="41041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTT</genome_strand>
        <mrna_strand>TCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291730" ref_strand="+" ref_description="SGN-E291730 [cLET-6-N15]">
      <seq>ggaaatgggagattcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggggagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41614" stop="40759"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41314" g_stop="41059" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="256" r_length="256" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291730" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>256</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291730" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41314" e_stop="41059"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGAT</genome_strand>
        <mrna_strand>GGAAATGGGAGATTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGGGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346583" ref_strand="+" ref_description="SGN-E346583 [cTOF-28-J1]">
      <seq>tttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagaagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagtnngaggttattcattgtagatgggccatgcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41740" stop="40771"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41440" g_stop="41071" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="371" r_length="371" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346583" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346583" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41440" e_stop="41071"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAG-AGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTG</genome_strand>
        <mrna_strand>TTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTNNGAGGTTATTCATTGTAGATGGGCCATGCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293157" ref_strand="+" ref_description="SGN-E293157 [cLET-12-B12]">
      <seq>taaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41645" stop="40789"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41345" g_stop="41089" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="257" r_length="257" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293157" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>257</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293157" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41345" e_stop="41089"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATT</genome_strand>
        <mrna_strand>TAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280543" ref_strand="+" ref_description="SGN-E280543 [cLER-1-E2]">
      <seq>ttctacttgtataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctacccatcttattctgaaatcaccgcacatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctgctctggtagcccatggaatgggcctgaccgagttaagaacttgggaccattctctggagaatccccacgctacttgaccgggagagtttcctggcgattactgatgggacactgctggactttcaggtgaccctgaaacattcgctaacaaccgtgagttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41711" stop="40801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41411" g_stop="41101" g_length="311"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="312" r_length="312" r_score="0.939"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280543" ref_strand="+">
        <total_alignment_score>0.939</total_alignment_score>
        <cumulative_length_of_scored_exons>311</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41411" e_stop="41101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACC-GGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGG</genome_strand>
        <mrna_strand>TTCTACTTGTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTACCCATCTTATTCTGAAATCACCGCACATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTGCTCTGGTAGCCCATGGAATGGGCCTGACCGAGTTAAGAACTTGGGACCATTCTCTGGAGAATCCCCACGCTACTTGACCGGGAGAGTTTCCTGGCGATTACTGATGGGACACTGCTGGACTTTCAGGTGACCCTGAAACATTCGCTAACAACCGTGAGTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283995" ref_strand="+" ref_description="SGN-E283995 [cLER-13-L12]">
      <seq>agagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggataaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggaagcccatggtatggacctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccgcagagtgtccaggatgattaccgatgggacactgctggactttcagctgaccctgaaacattcgcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41722" stop="40816"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41422" g_stop="41116" g_length="307"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="308" r_length="308" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283995" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>307</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283995" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41422" e_stop="41116"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGG-TGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTA</genome_strand>
        <mrna_strand>AGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGATAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGAAGCCCATGGTATGGACCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGCAGAGTGTCCAGGATGATTACCGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295726" ref_strand="+" ref_description="SGN-E295726 [cLET-25-A17]">
      <seq>ttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41739" stop="40818"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41439" g_stop="41118" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="322" r_length="322" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295726" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295726" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41439" e_stop="41118"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGC</genome_strand>
        <mrna_strand>TTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E281382" ref_strand="+" ref_description="SGN-E281382 [cLEL-1-P2](-)">
      <seq>ggtcaagtagcttggggattccccagagtatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaggctggcttggccttggtagcagtcttcctcatggtgactctcccatttccggtgatttcagaagaagatggggagagtttaaccgcctttccggggaatgtagaggaagaaagagccatgcgtagaagtagccattatagaagtagaatgagaaactcttgaatgtacctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="40883" stop="41731"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41183" g_stop="41438" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="257" r_length="257" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E281382" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>256</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E281382" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41183" e_stop="41438"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGCAAATGTAGAGGAAGAAAGAGCCATG-GTAGAAGTAGCCATTATAGAAGTAGAATGAGAAACTCTTGAATGTACAAAAAGA</genome_strand>
        <mrna_strand>GGTCAAGTAGCTTGGGGATTCCCCAGAGTATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTCTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGGGAATGTAGAGGAAGAAAGAGCCATGCGTAGAAGTAGCCATTATAGAAGTAGAATGAGAAACTCTTGAATGTACCTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289106" ref_strand="+" ref_description="SGN-E289106 [cLES-18-K22]">
      <seq>ccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatcccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41685" stop="40895"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41385" g_stop="41195" g_length="191"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="191" r_length="191" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E289106" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>191</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289106" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41385" e_stop="41195"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCA</genome_strand>
        <mrna_strand>CCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294203" ref_strand="+" ref_description="SGN-E294203 [cLET-14-A1]">
      <seq>ttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcgggtaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggaccattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41717" stop="40910"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41417" g_stop="41210" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="208" r_length="208" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294203" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>208</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294203" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41417" e_stop="41210"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTC</genome_strand>
        <mrna_strand>TTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGGTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGACCATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293813" ref_strand="+" ref_description="SGN-E293813 [cLET-37-K4]">
      <seq>tttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="41736" stop="40974"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="41436" g_stop="41274" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="163" r_length="163" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293813" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>163</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293813" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="41436" e_stop="41274"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGC</genome_strand>
        <mrna_strand>TTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320863" ref_strand="+" ref_description="SGN-E320863 [cTOB-27-B10]">
      <seq>ttttttactataaccatatataattgcgaaatttatcacggatacattatttaactgttaagtcattataaatgacataaagaaattaatctttcattttctcttgtcccatttttccacttgttactatatattaatattaatgatttagatttaatcaacaaacactaggttttagcaaaaaacttcatatataatcaatctctagtaatctacaattgctaggtttacatggttgtcatcaaacaataagatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcaaaggcccaggcgttgttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagccccaatagccaaaatgctttgtgcatgaaccaaactangggttcccnnagtagtcagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42042" stop="43373"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42338" g_stop="43073" g_length="736"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="726" r_length="726" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E320863" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>736</cumulative_length_of_scored_exons>
        <coverage percentage="1.014" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320863" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42338" e_stop="43073"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGATTACTATAACCATATATAATTGCGAAATTTATCACTACCAAGTAAGAATGGATACATTATTTAACTGTTAAGTCATTATAAATGACATAAAGAAATTAATCTTTCATTTTCTCTTTTCCCATTTTTCCACTTGTTACTATATATTAATATTAATGATTTAGATTTAATCAACAAACACTAGGTTTTAGCAAAAAACTTC--ATAT-AT-AATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTA-GGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTA</genome_strand>
        <mrna_strand>TTTTTTACTATAACCATATATAATTGCGAAATTTAT--C-A-C----------GGATACATTATTTAACTGTTAAGTCATTATAAATGACATAAAGAAATTAATCTTTCATTTTCTCTTGTCCCATTTTTCCACTTGTTACTATATATTAATATTAATGATTTAGATTTAATCAACAAACACTAGGTTTTAGCAAAAAACTTCATATATAATCAATCTCTAGTAATCTACAATTGCTAGGTTTACATGGTTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCCAATAGCCAAAATGCTTTGTGCATGAACCAAACTANGGGTTCCCNNAGTAGTC-AGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E230424" ref_strand="+" ref_description="SGN-E230424 [cLEL-35-N1](-)">
      <seq>gcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaacctagtgtttgttgattaaatctaaatcattaatattaatatatagtaacaagtggaaaaatgggacaagagaaaatgaaagattaatttctttaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43120" stop="42129"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42820" g_stop="42430" g_length="391"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="395" r_length="395" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="396" polyA_stop="413"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E230424" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>391</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E230424" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42820" e_stop="42430"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT--AGA--GATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAATGAAAGATTAATTTCTTT</genome_strand>
        <mrna_strand>GCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATTGATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGACAAGAGAAAATGAAAGATTAATTTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727049" ref_strand="+" ref_description="SGN-E727049 [LA13CD02]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggagagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaaagtgaagtttttgaaagaaaaaaatgttacctctagtatcttattgtttgatgacaaccatgtaaacctaacaattgtaaattactaaagaatgattatatatgaagttttttggctaaaacctagggtttgttgattaaatctaaatcattaatattataatatagcacccaggggaaaaatgggaaaaaacaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42144"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43445" g_stop="42444" g_length="1002"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1008" r_length="1008" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727049" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>1002</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727049" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43445" e_stop="42444"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGG-AAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT--AG-A-GATTATATATGAAGTTTTTT-GCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAATGAA</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGAGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAAGTGAAGTTTTTGAAAGAAAAAAATGTTACCTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAACAATTGTAAATTACTAAAGAATGATTATATATGAAGTTTTTTGGCTAAAACCTAGGGTTTGTTGATTAAATCTAAATCATTAATATTATAATATAGCACCCAGGGGAAAAATGGGAAAAAACAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219194" ref_strand="+" ref_description="SGN-E219194 [cLEL-11-D11](-)">
      <seq>gttgttgatccactttaccctggtggtagctttaacccattgggccttgttgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagcaattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctagaacctagagtttgttgattaaatataaatccctaacattaatatatagtaccaagtggaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43183" stop="42163"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42883" g_stop="42447" g_length="437"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="441" r_length="441" r_score="0.936"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E219194" ref_strand="+">
        <total_alignment_score>0.936</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219194" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42883" e_stop="42447"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT--AGA--GATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAAT</genome_strand>
        <mrna_strand>GTTGTTGATCCACTTTACCCTGGTGGTAGCTTTAACCCATTGGGCCTTGTTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCAATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATTGATTATATATGAAGTTTTTTGCTAGAACCTAGAGTTTGTTGATTAAATATAAATCCCTAACATTAATATATAGTACCAAGTGGAAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219622" ref_strand="+" ref_description="SGN-E219622 [cLEL-11-D12](-)">
      <seq>cccagaggcttttgctgagctcaaggtaaaggagatcaagaacggcagccttgctatgttctccatgtttggattctttgttcaagctattgccactggaaagggtccattggagaatcttgccgaccacattgctgccccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagtttttagctaaaacctagtgtttgttgattaaatctaaatcaataatattaatatatagtaacacccggccaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43127" stop="42173"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42827" g_stop="42447" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="385" r_length="385" r_score="0.924"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E219622" ref_strand="+">
        <total_alignment_score>0.924</total_alignment_score>
        <cumulative_length_of_scored_exons>381</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219622" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42827" e_stop="42447"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT--AGA--GATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAAT</genome_strand>
        <mrna_strand>CCCAGAGGCTTTTGCTGAGCTCAAGGTAAAGGAGATCAAGAACGGCAGCCTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGCCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGCCCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATTGATTATATATGAAGTTTTTAGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCAATAATATTAATATATAGTAACACCCGGCCAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738877" ref_strand="+" ref_description="SGN-E738877 [LC15BB07]">
      <seq>agttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattttatatgaagttttttgctaaaacctagtgtttgttgattaaatctaaatcatttatattaatatatagtaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42172"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43446" g_stop="42455" g_length="992"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="996" r_length="996" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738877" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>992</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738877" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43446" e_stop="42455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT-A---TATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAA</genome_strand>
        <mrna_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATTGATTTTATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTTATATTAATATATAGTAAAAAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733520" ref_strand="+" ref_description="SGN-E733520 [LB10BA01]">
      <seq>cattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaaacacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagaagatgattatatatgaagtttttggctaaaacctagtntttgtgattaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43755" stop="42204"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43455" g_stop="42491" g_length="965"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="968" r_length="968" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733520" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>965</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733520" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43455" e_stop="42491"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT---AGA-GATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAA</genome_strand>
        <mrna_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAAACACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAAGATGATTATATATGAAGTTTTTGGCTAAAACCTAGTNTTTG-TGATTAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297640" ref_strand="+" ref_description="SGN-E297640 [cLET-28-G12]">
      <seq>aaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctaacaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43467" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43167" g_stop="42517" g_length="651"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="651" r_length="651" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297640" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>651</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43167" e_stop="42517"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTG</genome_strand>
        <mrna_strand>AAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAACAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296054" ref_strand="+" ref_description="SGN-E296054 [cLET-27-P5]">
      <seq>gctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccataggcttttgctgagctcaaagtgaaggagatcacgaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43204" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42904" g_stop="42517" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="388" r_length="388" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296054" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>388</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296054" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42904" e_stop="42517"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTG</genome_strand>
        <mrna_strand>GCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCATAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCACGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292857" ref_strand="+" ref_description="SGN-E292857 [cLET-11-M10]">
      <seq>gttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43183" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42883" g_stop="42517" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="367" r_length="367" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E292857" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>367</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292857" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42883" e_stop="42517"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTG</genome_strand>
        <mrna_strand>GTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287061" ref_strand="+" ref_description="SGN-E287061 [cLES-6-J4]">
      <seq>aaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43326" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43026" g_stop="42518" g_length="509"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="509" r_length="509" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E287061" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287061" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43026" e_stop="42518"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGT</genome_strand>
        <mrna_strand>AAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288353" ref_strand="+" ref_description="SGN-E288353 [cLES-16-E5]">
      <seq>ttttttttagcaaaaaacttcatatataatctctagtaatttacaattgctaggtttacatgattgtcatcaaacaataagatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcaaaggcccaggcgttgttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcactttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacggttcttagcgaatgtttcaaggtcagctgaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42224" stop="43484"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42520" g_stop="43184" g_length="665"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="665" r_length="665" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288353" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>665</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288353" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42520" e_stop="43184"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGGTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGC</genome_strand>
        <mrna_strand>TTTTTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAAGGTCAGCTGAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299380" ref_strand="+" ref_description="SGN-E299380 [cLET-43-M17]">
      <seq>ttttttttagcaaaaaacttcatatataatctctagtaatttacaattgctaggtttacatgattgtcatcaaacaataagatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcaaaggcccaggcgttgttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcactttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42224" stop="43435"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42520" g_stop="43135" g_length="616"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="616" r_length="616" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E299380" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>616</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E299380" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42520" e_stop="43135"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGGTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAAT</genome_strand>
        <mrna_strand>TTTTTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E539566" ref_strand="+" ref_description="SGN-E539566 [TUS-59-G8](-)">
      <seq>gcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaaaaaaaaaactcgaggggggccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43616" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43316" g_stop="42524" g_length="793"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="793" r_length="793" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="794" polyA_stop="808"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E539566" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>793</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E539566" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43316" e_stop="42524"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAA</genome_strand>
        <mrna_strand>GCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285237" ref_strand="-" ref_description="SGN-E285237 [cLER-20-F16]">
      <seq>tgcttggtgctcttggatgtgttttccccaagcttttggcacgtaacggtgttaagtttggtaaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgctaaaaaaaaaaaaaaaacaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43416" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43116" g_stop="42524" g_length="593"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="593" r_length="593" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="594" polyA_stop="608"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285237" ref_strand="-">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285237" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="43116" e_stop="42524"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAA</genome_strand>
        <mrna_strand>TGCTTGGTGCTCTTGGATGTGTTTTCCCCAAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTAAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740844" ref_strand="+" ref_description="SGN-E740844 [LC23AE10]">
      <seq>cggtctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaatgtagattactagagattgattatatatgaagttttttgctaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43736" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42526" g_length="913"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="915" r_length="915" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E740844" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>913</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740844" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42526"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT--AGA--GATTATATATGAAGTTTTTTGCTAA</genome_strand>
        <mrna_strand>CGGTCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAG-AAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAA-TGTAGATTACTAGAGATTGATTATATATGAAGTTTTTTGCTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293943" ref_strand="+" ref_description="SGN-E293943 [cLET-13-O4]">
      <seq>caaaaaacttcatatataatctctagtaatttacaattgctaggtttacatgattgtcatcaaacaataagatactagacgtaacatttttttctctcaaaaactttactttccgggaacaaagtttgtggcaaaggcccacgcgtagttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctgcttcactttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42230" stop="43287"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42530" g_stop="42987" g_length="458"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="458" r_length="458" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293943" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293943" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42530" e_stop="42987"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAG</genome_strand>
        <mrna_strand>CAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTTACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCACGCGTAGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTGCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284283" ref_strand="+" ref_description="SGN-E284283 [cLER-16-N1]">
      <seq>gcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagtttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43428" stop="42231"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43128" g_stop="42531" g_length="598"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="596" r_length="596" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284283" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>598</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284283" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43128" e_stop="42531"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTT</genome_strand>
        <mrna_strand>GCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTT--GAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289298" ref_strand="+" ref_description="SGN-E289298 [cLES-18-H19]">
      <seq>ttttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaatcatgtaaacctagcaattgtaaattactagagattatatatgaagttttttgcttnnnnagaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43323" stop="42228"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43023" g_stop="42531" g_length="493"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="493" r_length="493" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="502" polyA_stop="524"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E289298" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289298" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43023" e_stop="42531"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTT</genome_strand>
        <mrna_strand>TTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293200" ref_strand="+" ref_description="SGN-E293200 [cLET-12-O7]">
      <seq>aaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctgatggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctgcatgtttggattctttgctcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatctgattgtttgatgacaatcatgtaaacctagcagtcgtaaattactagagattatatatgaagttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43292" stop="42234"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42992" g_stop="42534" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="459" r_length="459" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293200" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293200" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42992" e_stop="42534"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTT</genome_strand>
        <mrna_strand>AAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGATGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTGCATGTTTGGATTCTTTGCTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTGATTGTTTGATGACAATCATGTAAACCTAGCAGTCGTAAATTACTAGAGATTATATATGAAGTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734992" ref_strand="+" ref_description="SGN-E734992 [LB14AE11]">
      <seq>gtgtattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattataaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43509" stop="42238"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43209" g_stop="42537" g_length="673"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="674" r_length="674" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E734992" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>673</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E734992" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43209" e_stop="42537"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTG-ATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAG</genome_strand>
        <mrna_strand>GTGTATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATTGATTATAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738349" ref_strand="+" ref_description="SGN-E738349 [LC13BD01]">
      <seq>cctttaaggagttcataatggctgcttctactatggctctttcttcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctggggctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagtttttttgctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43755" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43455" g_stop="42547" g_length="909"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="909" r_length="909" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="934" polyA_stop="948"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738349" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>909</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738349" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43455" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CCTTTAAGGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733812" ref_strand="+" ref_description="SGN-E733812 [LB11AA10]">
      <seq>tctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttggtcccggaaagtgaagtttttgagaagaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43752" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43452" g_stop="42547" g_length="906"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="906" r_length="906" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733812" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>906</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733812" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43452" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGGTCCCGGAAAGTGAAGTTTTTGAGAAGAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726630" ref_strand="+" ref_description="SGN-E726630 [LA12BE09]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaangtttttgagaaaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaaccttagcattgtaaattactagagattgattatatatgaaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42547" g_length="905"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="906" r_length="906" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="931" polyA_stop="941"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726630" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>905</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726630" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAA-GTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAANGTTTTTGAGAAAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTTAGCATTGTAAATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734659" ref_strand="+" ref_description="SGN-E734659 [LB13BA07]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtaaattactagagattgattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42547" g_length="905"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="903" r_length="903" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="927" polyA_stop="937"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E734659" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>905</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E734659" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAG--AAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727636" ref_strand="+" ref_description="SGN-E727636 [LA15BB07]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaaatgtacgtctagtatcttattgtttgatgacaaccatgtaaaccctagcattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42547" g_length="903"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="903" r_length="903" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="927" polyA_stop="936"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727636" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>903</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAA-CCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAAATGTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCCTAGC-ATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727801" ref_strand="+" ref_description="SGN-E727801 [LA15DB04]">
      <seq>agagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttccccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43748" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43448" g_stop="42547" g_length="902"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="903" r_length="903" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="927" polyA_stop="936"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727801" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>902</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727801" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43448" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTT-CCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726950" ref_strand="+" ref_description="SGN-E726950 [LA13BB10]">
      <seq>agttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgancaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43446" g_stop="42547" g_length="900"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="900" r_length="900" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="924" polyA_stop="940"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726950" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>900</cumulative_length_of_scored_exons>
        <coverage percentage="0.957" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726950" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43446" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGANCACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728581" ref_strand="+" ref_description="SGN-E728581 [LA18BB07]">
      <seq>agttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43446" g_stop="42547" g_length="900"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="900" r_length="900" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728581" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>900</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728581" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43446" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E739786" ref_strand="+" ref_description="SGN-E739786 [LC18DD07]">
      <seq>catatatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43442" g_stop="42547" g_length="896"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="897" r_length="897" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="921" polyA_stop="931"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E739786" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>896</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739786" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43442" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATA-ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CATATATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E701949" ref_strand="+" ref_description="SGN-E701949 [FA17BE12]">
      <seq>cataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatggtacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43442" g_stop="42547" g_length="896"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="896" r_length="896" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="920" polyA_stop="929"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E701949" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>896</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E701949" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43442" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGGTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726840" ref_strand="+" ref_description="SGN-E726840 [LA12DH06]">
      <seq>aatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatggtacgtctagtatcttattgtttgatgacaacccatgtaacctagcaaatgtagattactagagattgattatatatgaagttttttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43739" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43439" g_stop="42547" g_length="893"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="893" r_length="893" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726840" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>893</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726840" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43439" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAA-TCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGGTACGTCTAGTATCTTATTGTTTGATGACAACCCATGT-AACCTAGCAAATGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727242" ref_strand="+" ref_description="SGN-E727242 [LA14AE11]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccgggaaagtgaagtttttgnagagaaaaaaatgttacgtctagtatcttattgnttgatgacaaccatgtaaaactagcaattgtagattactagagattgattatatatgaagttttttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42547" g_length="889"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="891" r_length="891" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727242" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>889</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCC-GGAAAGTGAAGTTTTTG-AGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGGAAAGTGAAGTTTTTGNAGAGAAAAAAATGTTACGTCTAGTATCTTATTGNTTGATGACAACCATGTAAAACTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738525" ref_strand="+" ref_description="SGN-E738525 [LC14AA01]">
      <seq>ctgttgaacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43495" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43199" g_stop="42547" g_length="653"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="653" r_length="653" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="677" polyA_stop="693"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738525" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>653</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738525" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43199" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CTGTTGAACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736948" ref_strand="+" ref_description="SGN-E736948 [LC07DF04]">
      <seq>tgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43498" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43198" g_stop="42547" g_length="652"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="676" polyA_stop="692"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E736948" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>652</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736948" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43198" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>TGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340324" ref_strand="-" ref_description="SGN-E340324 [cTOF-2-G16]">
      <seq>ttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaancggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaaaactgagactagttctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43481" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43181" g_stop="42547" g_length="635"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="636" r_length="636" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="660" polyA_stop="679"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340324" ref_strand="-">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="0.915" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340324" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="43181" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAA-CGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAANCGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732687" ref_strand="+" ref_description="SGN-E732687 [LB02DD12]">
      <seq>gttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43445" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43145" g_stop="42547" g_length="599"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="599" r_length="599" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="623" polyA_stop="636"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E732687" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>599</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732687" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43145" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735223" ref_strand="+" ref_description="SGN-E735223 [LB14DA10]">
      <seq>gcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43378" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43078" g_stop="42547" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="532" r_length="532" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="556" polyA_stop="568"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735223" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735223" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43078" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733462" ref_strand="+" ref_description="SGN-E733462 [LB10AC12]">
      <seq>gttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43366" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43066" g_stop="42547" g_length="520"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="520" r_length="520" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="544" polyA_stop="556"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733462" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43066" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733493" ref_strand="+" ref_description="SGN-E733493 [LB10AF09]">
      <seq>ctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43350" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43050" g_stop="42547" g_length="504"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="504" r_length="504" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="528" polyA_stop="542"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E733493" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>504</cumulative_length_of_scored_exons>
        <coverage percentage="0.930" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43050" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343443" ref_strand="+" ref_description="SGN-E343443 [cTOF-19-J21]">
      <seq>cggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43310" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43010" g_stop="42547" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="464" r_length="464" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="488" polyA_stop="498"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343443" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343443" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43010" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203305" ref_strand="+" ref_description="SGN-E203305 [cLEB-3-F9](-)">
      <seq>tttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43283" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42983" g_stop="42547" g_length="437"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="437" r_length="437" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="461" polyA_stop="478"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E203305" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="0.914" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203305" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42983" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>TTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234099" ref_strand="+" ref_description="SGN-E234099 [cLEL-8-C17](-)">
      <seq>ggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttcagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43280" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42980" g_stop="42547" g_length="434"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="434" r_length="434" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="458" polyA_stop="479"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E234099" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>434</cumulative_length_of_scored_exons>
        <coverage percentage="0.906" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E234099" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42980" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTCAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219794" ref_strand="+" ref_description="SGN-E219794 [cLEL-24-G23](-)">
      <seq>catgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccacctttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43276" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42976" g_stop="42547" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="431" r_length="431" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="443" polyA_stop="459"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E219794" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219794" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42976" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCA-CTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACCTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223117" ref_strand="+" ref_description="SGN-E223117 [cLEL-14-B2](-)">
      <seq>catgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43276" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42976" g_stop="42547" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="430" r_length="430" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="453" polyA_stop="470"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E223117" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.915" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223117" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42976" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223642" ref_strand="+" ref_description="SGN-E223642 [cLEL-14-B2](-)">
      <seq>catgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43276" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42976" g_stop="42547" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="430" r_length="430" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="454" polyA_stop="470"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E223642" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.915" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223642" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42976" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E218544" ref_strand="+" ref_description="SGN-E218544 [cLEL-18-E4](-)">
      <seq>gcattttggctatttgggcttgccaagttgtgttgatgggagccgttaagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43266" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42966" g_stop="42547" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="444" polyA_stop="462"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E218544" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>420</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E218544" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42966" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTAAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E215932" ref_strand="+" ref_description="SGN-E215932 [cLEL-13-A13](-)">
      <seq>gcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43266" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42966" g_stop="42547" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="444" polyA_stop="461"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E215932" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>420</cumulative_length_of_scored_exons>
        <coverage percentage="0.911" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E215932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42966" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E216262" ref_strand="+" ref_description="SGN-E216262 [cLEL-13-K9](-)">
      <seq>ctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccaactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43257" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42957" g_stop="42547" g_length="411"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="412" r_length="412" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="436" polyA_stop="452"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E216262" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>411</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E216262" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42957" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCC-ACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>CTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCAACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E216009" ref_strand="+" ref_description="SGN-E216009 [cLEL-13-J10](-)">
      <seq>ggcttgccaagttgtgttgatgggagccgttaagggttaccgtattgctggtgggcctcttggtgaggttgttgatccaactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttacaagaaaaaaaaaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43250" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42950" g_stop="42547" g_length="404"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="405" r_length="405" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="431" polyA_stop="443"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E216009" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="0.912" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E216009" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42950" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCC-ACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GGCTTGCCAAGTTGTGTTGATGGGAGCCGTTAAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCAACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E221709" ref_strand="+" ref_description="SGN-E221709 [cLEL-10-L8](-)">
      <seq>ggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacgtgctatgttctccatgtttggattctttgttcaagctattgtccctggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgcctcaaactttgttcccggaaagtgaagtttttgacagaaaccaatgttacgtctagtatcatattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43216" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42916" g_stop="42547" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="394" polyA_stop="410"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E221709" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="0.902" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E221709" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42916" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACGTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCCCTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCTCAAACTTTGTTCCCGGAAAGTGAAGTTTTTGACAGAAACCAATGTTACGTCTAGTATCATATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E219938" ref_strand="+" ref_description="SGN-E219938 [cLEL-24-G23](-)">
      <seq>gttaccgtattgctggtgggcctcttggtaaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacctgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43215" stop="42237"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42915" g_stop="42547" g_length="369"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="369" r_length="369" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="381" polyA_stop="397"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E219938" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>369</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E219938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42915" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>GTTACCGTATTGCTGGTGGGCCTCTTGGTAAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACCTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E216131" ref_strand="+" ref_description="SGN-E216131 [cLEL-13-K9](-)">
      <seq>tattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagattgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43208" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42908" g_stop="42547" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="362" r_length="362" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="386" polyA_stop="402"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E216131" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>362</cumulative_length_of_scored_exons>
        <coverage percentage="0.900" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E216131" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42908" e_stop="42547"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATT</genome_strand>
        <mrna_strand>TATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727402" ref_strand="+" ref_description="SGN-E727402 [LA14CD04]">
      <seq>cgctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgaaagaaaaaaatgttacctctagtatcttattgtttgatgacacccttgtaaccctagcaattggaaattactagaagatggattatatatgaaggtttttttgctaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43453" g_stop="42550" g_length="904"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="904" r_length="904" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="934" polyA_stop="949"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727402" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>904</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727402" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43453" e_stop="42550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAG</genome_strand>
        <mrna_strand>CGCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAAAGAAAAAAATGTTACCTCTAGTATCTTATTGTTTGATGACACCCTTGTAACCCTAGCAATTGGAAATTACTAGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705741" ref_strand="+" ref_description="SGN-E705741 [FA28AA10]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccgggaaagtgaattttttgagagaaaaaaatgttacgtctagtatcttattggttgatgacaaccatgtaaaccctagcaattgtacaatactagaggatggatatatatgaaagttttttgctaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42550" g_length="900"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="902" r_length="902" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="930" polyA_stop="943"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E705741" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>900</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705741" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCC-GGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAA-CCTAGCAATTGTAAATTACTAGAG</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGGAAAGTGAATTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGGTTGATGACAACCATGTAAACCCTAGCAATTGTACAATACTAGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E227717" ref_strand="+" ref_description="SGN-E227717 [cLEL-30-O12](-)">
      <seq>catgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaattgtagattactagagaccgattatatatgaagttttttgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43276" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42976" g_stop="42550" g_length="427"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="454" polyA_stop="470"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E227717" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>427</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E227717" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42976" e_stop="42550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAG</genome_strand>
        <mrna_strand>CATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATTGTAGATTACTAGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727244" ref_strand="+" ref_description="SGN-E727244 [LA14AF01]">
      <seq>ggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaatgttacgtctagtatcttattgtttgatgacnaccatgtaaacctagcaattgtagattact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43736" stop="42254"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43436" g_stop="42554" g_length="883"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="882" r_length="882" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727244" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>883</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727244" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43436" e_stop="42554"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACT</genome_strand>
        <mrna_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAG-AAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACNACCATGTAAACCTAGCAATTGTAGATTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726284" ref_strand="+" ref_description="SGN-E726284 [LA11BE05]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttccccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgttaacctaacaattgtagatttactaaaaaatgattatatatgaaagttttttgctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42564" g_length="888"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="889" r_length="889" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="932" polyA_stop="942"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726284" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>888</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726284" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42564"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTT-CCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATT</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTTAACCTAACAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727128" ref_strand="+" ref_description="SGN-E727128 [LA13DC07]">
      <seq>cctaatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42264"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43442" g_stop="42564" g_length="879"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="879" r_length="879" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727128" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727128" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43442" e_stop="42564"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATT</genome_strand>
        <mrna_strand>CCTAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAACCATGTAAACCTAGCAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705811" ref_strand="+" ref_description="SGN-E705811 [FA28AH01]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttccccggaaagtgaagtttttgagaagaaaaaaatgttacgtctagtatcttattgtttgatgacacccatgtaaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42271"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42571" g_length="879"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="881" r_length="881" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E705811" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42571"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTT-CCCGGAAAGTGAAGTTTTTGAG-AGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCT</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCCGGAAAGTGAAGTTTTTGAGAAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACACCCATGTAAACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726885" ref_strand="+" ref_description="SGN-E726885 [LA13AD10]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggccttttgcacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgtacgtctagtatcttattgtttgatgacaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43754" stop="42283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42582" g_length="873"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="872" r_length="872" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726885" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>873</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726885" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42582"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAAT</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTTGCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATG-TACGTCTAGTATCTTATTGTTTGATGACAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730548" ref_strand="+" ref_description="SGN-E730548 [LA24BH03]">
      <seq>caatgttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagaagaaaaaatgttacgtctagtatcttattgtttgatgacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42583" g_length="867"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="867" r_length="867" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730548" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>867</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730548" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42583"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAA</genome_strand>
        <mrna_strand>CAATGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAAGAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726799" ref_strand="+" ref_description="SGN-E726799 [LA12DD09]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgaggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42286"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42586" g_length="866"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="865" r_length="865" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726799" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>866</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42586"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGA</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA-GGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726476" ref_strand="+" ref_description="SGN-E726476 [LA11DF11]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccngaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42287"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42587" g_length="863"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="863" r_length="863" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726476" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>863</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726476" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42587"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATG</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCNGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277134" ref_strand="+" ref_description="SGN-E277134 [cLEL-3-E14](-)">
      <seq>acaataagatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcaaaggctcaggcgttgttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacaccttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42293" stop="43402"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42593" g_stop="43108" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="517" r_length="517" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E277134" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E277134" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42593" e_stop="43108"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACAT-CCAAGAGC</genome_strand>
        <mrna_strand>ACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCTCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACACCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCCTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735029" ref_strand="+" ref_description="SGN-E735029 [LB14BA02]">
      <seq>ccatttaaggggtaatggctgcttctactatggctctttcctcccctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggaaaatcttgccgaccacattgctgacccagttaacaacaacgcctggggcctttgccacaaactttgttcccgggaaagtgaagtttttgagaaaaaaaaatgttacgtcctagaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43740" stop="42299"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43456" g_stop="42599" g_length="858"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="857" r_length="857" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735029" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>858</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43456" e_stop="42599"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCT-GGGCCTTTGCCACAAACTTTGTTCCC-GGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGT-CTAGTATCT</genome_strand>
        <mrna_strand>CCATT-TAAGGGGT-A--ATGGCTGCTTCTACTATGGCTCTTTCCTCCCCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAAAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCCTTTGCCACAAACTTTGTTCCCGGGAAAGTGAAGTTTTTGAGAAAAAAAAATGTTACGTCCTAGAATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318674" ref_strand="+" ref_description="SGN-E318674 [cTOB-9-K11]">
      <seq>gatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcataggcccaggcgttgttgttatctgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaattgcttgaacaaagaatccaaacatggagatcatagcaagtctgccgttcttgatctccttctccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaatgcttccacctgggctaagtggatcaacatcctcaccaagaggcccaccagcaatacgggatccctcaacggctcccatcatcacaacttggcaagcccaaatagccaaaaagctttgtgcatgaaccaaactagggtttcccaagttgtcaagtccgccctcgctgaatacttgagatcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42300" stop="43334"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42600" g_stop="43034" g_length="435"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="435" r_length="435" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318674" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>435</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318674" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42600" e_stop="43034"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCA</genome_strand>
        <mrna_strand>GATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCATAGGCCCAGGCGTTGTTGTTATCTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATTGCTTGAACAAAGAATCCAAACATGGAGATCATAGCAAGTCTGCCGTTCTTGATCTCCTTCTCCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAATGCTTCCACCTGGGCTAAGTGGATCAACATCCTCACCAAGAGGCCCACCAGCAATACGGGATCCCTCAACGGCTCCCATCATCACAACTTGGCAAGCCCAAATAGCCAAAAAGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTTGTCAAGTCCGCCCTCGCTGAATACTTGAGATCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E548242" ref_strand="+" ref_description="SGN-E548242 [TUS-59-G8]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactgggaagggtccattggagaaatcttgccgacacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaaatgaagtttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42327"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42627" g_length="809"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="809" r_length="809" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E548242" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>809</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E548242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42627"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAG-AATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTG</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGGAAGGGTCCATTGGAGAAATCTTGCCGA-CACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAATGAAGTTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E722338" ref_strand="+" ref_description="SGN-E722338 [FC16DH07]">
      <seq>gggcgattggcggccaatcggccgaattgcttctttttttgccattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtgtaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43755" stop="42329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43469" g_stop="42629" g_length="841"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="869" r_length="840" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E722338" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>841</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E722338" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43469" e_stop="42629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTT</genome_strand>
        <mrna_strand>CTTCTTTTTTTG-CCATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGTAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E739894" ref_strand="+" ref_description="SGN-E739894 [LC19BA11]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaacttttgttccggaaagtgaagtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42629" g_length="807"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="807" r_length="807" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E739894" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>807</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739894" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTT</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTTGTTCCGGAAAGTGAAGTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734071" ref_strand="+" ref_description="SGN-E734071 [LB11CG12]">
      <seq>cattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctggggctttgccacaaactttgttcccggaaagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43755" stop="42335"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43455" g_stop="42635" g_length="821"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="821" r_length="821" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E734071" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E734071" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43455" e_stop="42635"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGA</genome_strand>
        <mrna_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCTTTGCCACAAACTTTGTTCCCGGAAAGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727821" ref_strand="+" ref_description="SGN-E727821 [LA15DD05]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42335"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42635" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727821" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727821" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42635"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGA</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703282" ref_strand="+" ref_description="SGN-E703282 [FA21AC11]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgcacaaactttgttcccggaaagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42336"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42636" g_length="803"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="843" r_length="802" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E703282" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>803</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703282" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTG-CACAAACTTTGTTCCCGGAAAGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726301" ref_strand="+" ref_description="SGN-E726301 [LA11BG02]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42639" g_length="830"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="831" r_length="831" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726301" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>830</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726301" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736364" ref_strand="+" ref_description="SGN-E736364 [LC05CA07]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42639" g_length="830"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="831" r_length="831" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E736364" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>830</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738564" ref_strand="+" ref_description="SGN-E738564 [LC14AF03]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43466" g_stop="42639" g_length="828"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="828" r_length="828" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738564" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>828</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43466" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740455" ref_strand="+" ref_description="SGN-E740455 [LC21CA07]">
      <seq>ctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43462" g_stop="42639" g_length="824"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="824" r_length="824" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E740455" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>824</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740455" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43462" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738929" ref_strand="+" ref_description="SGN-E738929 [LC15BH11]">
      <seq>tttttatttattaacattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43461" g_stop="42639" g_length="823"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="823" r_length="823" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738929" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738929" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43461" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTTTTATTTATTAACATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729636" ref_strand="+" ref_description="SGN-E729636 [LA21CF02]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43754" stop="42338"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42639" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729636" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735946" ref_strand="+" ref_description="SGN-E735946 [LC03DB08]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42337"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42639" g_length="813"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="813" r_length="813" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735946" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>813</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735946" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726903" ref_strand="+" ref_description="SGN-E726903 [LA13AF06]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgacccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgtacccggaaagtgaaagtaatttgggctaattaatgaaagttttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42306"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42639" g_length="812"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="813" r_length="813" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726903" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726903" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGA-CCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTACCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729742" ref_strand="+" ref_description="SGN-E729742 [LA21DH04]">
      <seq>cataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42338"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43442" g_stop="42639" g_length="804"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="804" r_length="804" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729742" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729742" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43442" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727564" ref_strand="+" ref_description="SGN-E727564 [LA15AC06]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggttttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttccccggaagtgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42335"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="837" r_length="800" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727564" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGTTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731374" ref_strand="+" ref_description="SGN-E731374 [LA26DG05]">
      <seq>aacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43777" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="838" r_length="800" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731374" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731374" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726770" ref_strand="+" ref_description="SGN-E726770 [LA12DB01]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttccgggaaagtgagtgcaacaaactgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="836" r_length="800" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726770" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726770" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726868" ref_strand="+" ref_description="SGN-E726868 [LA13AC05]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccccaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="837" r_length="800" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726868" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726868" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCCCAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E737398" ref_strand="+" ref_description="SGN-E737398 [LC09CF02]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctganccagttaacaacaacgcctgggctttgccacaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="833" r_length="799" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E737398" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGANCCAGTTAACAACAACGCCTGGG-CTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721997" ref_strand="+" ref_description="SGN-E721997 [FC15DF05]">
      <seq>gataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43786" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="856" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E721997" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.913" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E721997" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726982" ref_strand="+" ref_description="SGN-E726982 [LA13BE08]">
      <seq>ccgttaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctggggctttgccacaaactttgttcccggaaagtgagtgcaacaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43782" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="844" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726982" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726982" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727332" ref_strand="+" ref_description="SGN-E727332 [LA14BF04]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43780" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="842" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727332" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.920" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727332" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727557" ref_strand="+" ref_description="SGN-E727557 [LA15AB11]">
      <seq>cgatcacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43776" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="840" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727557" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.928" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727557" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738087" ref_strand="+" ref_description="SGN-E738087 [LC12BC10]">
      <seq>aacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43777" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="838" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E738087" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.911" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740914" ref_strand="+" ref_description="SGN-E740914 [LC23BH02]">
      <seq>cgctttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgncacaaactgttctccaattagtgtgagattatgagtttttag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43771" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42639" g_length="800"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="835" r_length="800" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E740914" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="0.904" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740914" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705100" ref_strand="+" ref_description="SGN-E705100 [FA26AF09]">
      <seq>ctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgggaaagtgagtgcaacaaactgttctccaattagtgtgagattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43728" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43428" g_stop="42639" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="790" r_length="790" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E705100" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705100" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43428" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731539" ref_strand="+" ref_description="SGN-E731539 [LA27BG09]">
      <seq>gccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactagtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaacctgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43699" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43399" g_stop="42639" g_length="761"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="761" r_length="761" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731539" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>761</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43399" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>GCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTAGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735999" ref_strand="+" ref_description="SGN-E735999 [LC03DH09]">
      <seq>cgatacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43689" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43394" g_stop="42639" g_length="756"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="755" r_length="755" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735999" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>756</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735999" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43394" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CGATACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAAC-ACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346391" ref_strand="+" ref_description="SGN-E346391 [cTOF-23-E8]">
      <seq>tgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacanactttgttcccggaaagtgagtgcaacaaactgttctccaattagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43625" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43325" g_stop="42639" g_length="687"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="687" r_length="687" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346391" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346391" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43325" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACANACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280544" ref_strand="+" ref_description="SGN-E280544 [cLER-1-E4]">
      <seq>ttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43561" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43261" g_stop="42639" g_length="623"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="621" r_length="621" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280544" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>623</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280544" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43261" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGC--TTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371057" ref_strand="+" ref_description="SGN-E371057 [TUS-29-H5]">
      <seq>ttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacatcgcctgggcttttgccacacactttgttcccggaaagtgagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43481" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43181" g_stop="42639" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E371057" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43181" e_stop="42639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACATCGCCTGGGCTTTTGCCACACACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315322" ref_strand="+" ref_description="SGN-E315322 [cTOA-24-N1]">
      <seq>aaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacacaacgcctgggcttttgcacaaactttgntcccggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43693" stop="42340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43394" g_stop="42640" g_length="755"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="753" r_length="753" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E315322" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315322" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43394" e_stop="42640"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAA</genome_strand>
        <mrna_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAAC-ACAACGCCTGGGCTTTTG-CACAAACTTTGNTCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710719" ref_strand="+" ref_description="SGN-E710719 [FA56CA02]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42641" g_length="798"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="832" r_length="798" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E710719" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E710719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42641"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E700580" ref_strand="+" ref_description="SGN-E700580 [FA13CB07]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42332"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42644" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="832" r_length="795" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E700580" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E700580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42644"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740518" ref_strand="+" ref_description="SGN-E740518 [LC21DA12]">
      <seq>catttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaaccgcctgggcttttgccacaaactttgtttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42347"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43467" g_stop="42645" g_length="823"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="824" r_length="824" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E740518" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740518" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43467" e_stop="42645"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAA-CGCCTGGGCCTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>CATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACCGCCTGGGCTTTTGCCACAAACTTTGTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731965" ref_strand="+" ref_description="SGN-E731965 [LA28CG10]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctatcttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgngccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42345"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42645" g_length="794"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="835" r_length="794" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731965" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>794</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731965" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42645"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTATCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGNGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729778" ref_strand="+" ref_description="SGN-E729778 [LA22AC11]">
      <seq>atggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43723" stop="42345"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43423" g_stop="42645" g_length="779"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="779" r_length="779" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729778" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>779</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43423" e_stop="42645"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>ATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721776" ref_strand="+" ref_description="SGN-E721776 [FC15BB04]">
      <seq>gggcgattggcggccaatcggccgaattgataacacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43798" stop="42349"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42649" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="84" r_stop="873" r_length="790" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E721776" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E721776" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728366" ref_strand="+" ref_description="SGN-E728366 [LA17CD06]">
      <seq>gctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaaccacaacgccctgggcttttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42349"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42649" g_length="787"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="788" r_length="788" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728366" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>787</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACG-CCTGGGCCTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACCACAACGCCCTGGGCTTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342809" ref_strand="+" ref_description="SGN-E342809 [cTOF-7-L3]">
      <seq>ggcccaagcctgcctcctctggtagccccatggtaccggtcctgaccgtgttaagtacttgggcccacttctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43616" stop="42349"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43317" g_stop="42649" g_length="669"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="672" r_length="672" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342809" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>669</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342809" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43317" e_stop="42649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCCAAGCCTGCCTCCTCTGGTAG-CCCATGGTA-CGGTCCTGACCGTGTTAAGTACTTGGGCCCA-TTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>GGCCCAAGCCTGCCTCCTCTGGTAGCCCCATGGTACCGGTCCTGACCGTGTTAAGTACTTGGGCCCACTTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E690273" ref_strand="+" ref_description="SGN-E690273 [LH_Ea03B07]">
      <seq>ccgtatttgtttttattaattattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccccggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggatgtgtattccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagctgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagcttaaagttaaggaaattaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggaccattggagaaccttgctgaccaccttgcagacccagttaacaacaacgcctgggcttttgctacaaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43764" stop="42350"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42650" g_length="789"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="818" r_length="789" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E690273" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E690273" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42650"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCCGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTTAAAGTTAAGGAAATTAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGACCATTGGAGAACCTTGCTGACCACCTTGCAGACCCAGTTAACAACAACGCCTGGGCTTTTGCTACAAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730793" ref_strand="+" ref_description="SGN-E730793 [LA25AH05]">
      <seq>aacacaattcatcctctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaaacacaacgcctgggcttttgccacaaaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42350"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42650" g_length="789"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="829" r_length="790" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730793" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730793" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42650"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCAC-AAACTTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAAACACAACGCCTGGGCTTTTGCCACAAAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292044" ref_strand="+" ref_description="SGN-E292044 [cLET-7-N18]">
      <seq>aaagctggatctcaggttttcagcgagggcggacttgactacttgggaaaccctagtttggtcatgcacaaagcattttggctatttgggcttgccaagttggttgatgggagccgtggggttaccgattgctggtgggcctcttgggaggttgtgatccactttaccctggggagctttgacccattggccttgctgaagacccagaggcttttgctggctaaggtgaaggagatcaagaatggagacttgctatgtctacatggtggattctttgttcaagctattgtaccggaaagggcctgtgagaaccttgctaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43339" stop="37977"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43039" g_stop="42652" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="369" r_length="369" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E292044" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>388</cumulative_length_of_scored_exons>
        <coverage percentage="1.051" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292044" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43039" e_stop="42652"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACT</genome_strand>
        <mrna_strand>AAAGCTGGATCTCAGGTTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGG-TCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTG-GTTGATGGGAGCCG-TG-GGGTTACCG-ATTGCTGGTGGGCCTCTTGG-GAGGTTG-TGATCCACTTTACCCTGG-GG-AGCTTTGACCCATT-GGCCTTGCTGAAGACCCAGAGGCTTTTGCTG-GCT-AAGGTGAAGGAGATCAAGAATGG-AGACTTGCTATG-TCTACATG-GTGGATTCTTTGTTCAAGCTATTGT-ACCGGAAAGGG-CC-TGTGAGAACCTTG-CTACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735364" ref_strand="+" ref_description="SGN-E735364 [LC01BB03]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttggtcaagctattgtcactggaaagggtccattggagaatcttgccgaccccattgctgacccagttaacaacaacgcctggggccttgccacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42355"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43445" g_stop="42655" g_length="791"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="791" r_length="791" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735364" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>791</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43445" e_stop="42655"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAA</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGGTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCCATTGCTGACCCAGTTAACAACAACGCCTGGGGCCTTGCCACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730185" ref_strand="+" ref_description="SGN-E730185 [LA23BD01]">
      <seq>cactattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42355"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42655" g_length="784"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="820" r_length="784" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730185" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>784</cumulative_length_of_scored_exons>
        <coverage percentage="0.956" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730185" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42655"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705814" ref_strand="+" ref_description="SGN-E705814 [FA28AH04]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccactttgctgacccagttaacaacaacgcctgggccttttgccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42657" g_length="782"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="819" r_length="783" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E705814" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42657"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCC-TTTGCCAC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACTTTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTTGCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348417" ref_strand="+" ref_description="SGN-E348417 [cTOF-27-L22]">
      <seq>gctggtagcccatggtatggccctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgcgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattatcagcgagggcggacttgactacttgggaaaccctagttcggttcatgcacaaagcatttcggctatttgggcttgccaagttgagttgatgggagccagggagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctgtgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattggtgacccagctaacaacaacgcctgggcttttgccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43599" stop="42357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43300" g_stop="42657" g_length="644"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="644" r_length="644" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348417" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>644</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348417" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43300" e_stop="42657"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCAC</genome_strand>
        <mrna_strand>GCTGGTAGCCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGCGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTATCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTCGGTTCATGCACAAAGCATTTCGGCTATTTGGGCTTGCCAAGTTGAGTTGATGGGAGCCAGGGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTGTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGGTGACCCAGCTAACAACAACGCCTGGGCTTTTGCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348869" ref_strand="+" ref_description="SGN-E348869 [cTOF-29-L22]">
      <seq>ttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccacttntaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagcctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacacaacgcctgggcctttgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43670" stop="42359"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43370" g_stop="42659" g_length="712"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="714" r_length="714" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348869" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>712</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348869" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43370" e_stop="42659"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTT-TACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG-CTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCC</genome_strand>
        <mrna_strand>TTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTNTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAAC-ACAACGCCTGGGCCTTTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730045" ref_strand="+" ref_description="SGN-E730045 [LA22DE10]">
      <seq>cagatttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgccctgggcctttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43748" stop="42360"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42660" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="791" r_length="791" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730045" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42660"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACG-CCTGGGCCTTTGC</genome_strand>
        <mrna_strand>CAGATTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCCTGGGCCTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710278" ref_strand="+" ref_description="SGN-E710278 [FA54DG08]">
      <seq>cgagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttccagctattgtcactggaaagggtccattggaaaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43747" stop="42360"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43448" g_stop="42660" g_length="789"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="789" r_length="789" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E710278" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E710278" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43448" e_stop="42660"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGC</genome_strand>
        <mrna_strand>CGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCCAGCTATTGTCACTGGAAAGGGTCCATTGGAAAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E707060" ref_strand="+" ref_description="SGN-E707060 [FA31DG09]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaacacattgctgacccangtaacaacaacgcctgggcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42363"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42663" g_length="776"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="810" r_length="776" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E707060" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>776</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E707060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGAACACATTGCTGACCCANGTAACAACAACGCCTGGGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731543" ref_strand="+" ref_description="SGN-E731543 [LA27BH01]">
      <seq>aggaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgaaccagttaacaacaacgcctgggcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42363"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42663" g_length="776"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="818" r_length="776" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731543" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>776</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42663"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAACCAGTTAACAACAACGCCTGGGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348560" ref_strand="+" ref_description="SGN-E348560 [cTOF-30-L20]">
      <seq>ctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaagggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacacgcctgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43734" stop="42364"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43434" g_stop="42664" g_length="771"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="773" r_length="773" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348560" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>771</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348560" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43434" e_stop="42664"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAA-GGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCT</genome_strand>
        <mrna_strand>CTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAAC-ACGCCTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293315" ref_strand="+" ref_description="SGN-E293315 [cLET-18-N11]">
      <seq>tgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43475" stop="42364"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43175" g_stop="42664" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="512" r_length="512" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293315" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293315" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43175" e_stop="42664"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCT</genome_strand>
        <mrna_strand>TGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E700266" ref_strand="+" ref_description="SGN-E700266 [FA12CE11]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggcccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43445" g_stop="42666" g_length="780"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="780" r_length="780" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E700266" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>780</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E700266" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43445" e_stop="42666"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGCCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726953" ref_strand="+" ref_description="SGN-E726953 [LA13BC02]">
      <seq>cgctcaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43772" stop="42368"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42668" g_length="771"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="809" r_length="771" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726953" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>771</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726953" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42668"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E699998" ref_strand="+" ref_description="SGN-E699998 [FA11DC09]">
      <seq>atcattcaagagtctttttatttattaaaattaaaccatggctgcctctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccaattaacaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42376"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42676" g_length="763"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="800" r_length="763" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E699998" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>763</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E699998" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42676"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACA</genome_strand>
        <mrna_strand>ATGGCTGCCTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAATTAACAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290045" ref_strand="+" ref_description="SGN-E290045 [cLET-5-O21]">
      <seq>taactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagggacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcactttgagctcaacaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42382" stop="43201"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42682" g_stop="42901" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="220" r_length="220" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E290045" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>220</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42682" e_stop="42901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACC</genome_strand>
        <mrna_strand>TAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGGGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAACAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710733" ref_strand="+" ref_description="SGN-E710733 [FA56CB07]">
      <seq>ccttgagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggcggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaacgagatcaagaacggcagacttgctatgttcctccctgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccccattggctgaccccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43747" stop="42387"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42685" g_length="767"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="769" r_length="769" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E710733" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>767</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E710733" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42685"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTT-CTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATT-GCTGACCCAG</genome_strand>
        <mrna_strand>CCTTGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGCGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAACGAGATCAAGAACGGCAGACTTGCTATGTTCCTCCCTGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCCATTGGCTGACCCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726298" ref_strand="+" ref_description="SGN-E726298 [LA11BF11]">
      <seq>cgatattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43770" stop="42385"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42685" g_length="754"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="790" r_length="754" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726298" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>754</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726298" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42685"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727051" ref_strand="+" ref_description="SGN-E727051 [LA13CD04]">
      <seq>ccctttaagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggacctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggagaacctgtatggatcaaagctggatctcaaattttcaacgagggcggacttgactacttgggaaaccctagattggttcgtgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctccaggagaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43755" stop="42387"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43453" g_stop="42687" g_length="767"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="767" r_length="767" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727051" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>767</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43453" e_stop="42687"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>CCCTTTAAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGACCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGAGAACCTGTATGGATCAAAGCTGGATCTCAAATTTTCAACGAGGGCGGACTTGACTACTTGGGAAACCCTAGATTGGTTCGTGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCCAGGAGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322970" ref_strand="+" ref_description="SGN-E322970 [cTOB-30-F21]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggangatcttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42387"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42687" g_length="763"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="763" r_length="763" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E322970" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>763</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322970" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42687"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGANGATCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730927" ref_strand="+" ref_description="SGN-E730927 [LA25CE11]">
      <seq>tcatttagggtcatttctttttatttattaaaattaaaccatcgttgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttccagctattgtcaccggaaagggtcccgttggaaaaccttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43767" stop="42387"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43433" g_stop="42687" g_length="747"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="793" r_length="748" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730927" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>747</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730927" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43433" e_stop="42687"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGT-CCATTGGAGAATCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>TGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCCAGCTATTGTCACCGGAAAGGGTCCCGTTGGAAAACCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697644" ref_strand="+" ref_description="SGN-E697644 [FA03CG06]">
      <seq>attaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42388"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43452" g_stop="42688" g_length="765"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="765" r_length="765" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E697644" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>765</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E697644" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43452" e_stop="42688"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACC</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729655" ref_strand="+" ref_description="SGN-E729655 [LA21CG12]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcacaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43445" g_stop="42689" g_length="757"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="757" r_length="757" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729655" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>757</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729655" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43445" e_stop="42689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGAC</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCACACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720873" ref_strand="+" ref_description="SGN-E720873 [FC12AE02]">
      <seq>cggccaaatcggccgaattgataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43786" stop="42389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42689" g_length="750"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="825" r_length="750" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E720873" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>750</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E720873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGAC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731636" ref_strand="+" ref_description="SGN-E731636 [LA27CH09]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42390"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42690" g_length="749"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="785" r_length="749" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731636" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>749</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42690"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344418" ref_strand="+" ref_description="SGN-E344418 [cTOF-14-M19]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42420"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42719" g_length="747"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="747" r_length="747" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344418" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>747</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344418" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42719"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCA</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326972" ref_strand="+" ref_description="SGN-E326972 [cTOC-18-E1]">
      <seq>gctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtggggcctcttggtgaggttgttgatccactttanccctggtggtagctttgacccattngggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgntctccatgtttggattctttgttcaagctattgtcaccggaaagggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43533" stop="42422"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43233" g_stop="42722" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="515" r_length="515" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E326972" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326972" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43233" e_stop="42722"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT-GGGCCTCTTGGTGAGGTTGTTGATCCACTTTA-CCCTGGTGGTAGCTTTGACCCATT-GGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGT</genome_strand>
        <mrna_strand>GCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGGCCTCTTGGTGAGGTTGTTGATCCACTTTANCCCTGGTGGTAGCTTTGACCCATTNGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGNTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339068" ref_strand="+" ref_description="SGN-E339068 [cTOF-6-C3]">
      <seq>tgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43349" stop="42426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43049" g_stop="42726" g_length="324"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="324" r_length="324" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339068" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>324</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339068" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43049" e_stop="42726"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAA</genome_strand>
        <mrna_strand>TGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731718" ref_strand="+" ref_description="SGN-E731718 [LA27DH09]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42427"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42727" g_length="712"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="748" r_length="712" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E731718" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>712</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731718" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42727"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344873" ref_strand="+" ref_description="SGN-E344873 [cTOF-21-H1]">
      <seq>taagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgntcaagctattgtcactgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42428"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42901" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="550" r_length="550" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="42900" i_stop="42832" i_length="69">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="42831" g_stop="42728" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="551" r_stop="654" r_length="104" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344873" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>654</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42901"/>
          <exon e_start="42831" e_stop="42728"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGA</genome_strand>
        <mrna_strand>TAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG.....................................................................AAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGNTCAAGCTATTGTCACTGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728208" ref_strand="+" ref_description="SGN-E728208 [LA17AC04]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagttggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctncaggtgaaggagatcaagaacggcagacttgctatngtctccatgtttggatttctttgtcaagctattgtcactgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43754" stop="42429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42729" g_length="726"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="727" r_length="727" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728208" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>726</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728208" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAG-TGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGG</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTNCAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATNGTCTCCATGTTTGGATTTCTTTGTCAAGCTATTGTCACTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725107" ref_strand="+" ref_description="SGN-E725107 [FC26AD04]">
      <seq>cggccaaatcggccgaattgataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43786" stop="42429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42729" g_length="710"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="785" r_length="710" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725107" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="0.904" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725107" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339853" ref_strand="+" ref_description="SGN-E339853 [cTOF-3-M3]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42729" g_length="707"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="707" r_length="707" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339853" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339853" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGG</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723349" ref_strand="+" ref_description="SGN-E723349 [FC20AH11]">
      <seq>gggcgattggcggcaaatcggccgaattccatggggatccgatcaatacaaccatcaaaacacaattcatttctttttatttattcaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42731" g_length="724"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="804" r_length="722" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E723349" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="0.900" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E723349" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42731"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACT</genome_strand>
        <mrna_strand>ATTC-AA-ATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339896" ref_strand="+" ref_description="SGN-E339896 [cTOF-3-D15]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42731" g_length="708"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="743" r_length="708" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339896" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339896" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42731"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347883" ref_strand="-" ref_description="SGN-E347883 [cTOF-31-A6]">
      <seq>ggtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctaccattcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgatttcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccttctatccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaataaataaaaagaagtgaattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42432" stop="43766"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42731" g_stop="43236" g_length="506"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="43237" i_stop="43312" i_length="76">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43313" g_stop="43436" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="508" r_stop="631" r_length="124" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E347883" ref_strand="-">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>630</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347883" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="42731" e_stop="43236"/>
          <exon e_start="43313" e_stop="43436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACG-GTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCC</genome_strand>
        <mrna_strand>GGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTG............................................................................GGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCTTCTATCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730891" ref_strand="+" ref_description="SGN-E730891 [LA25CB02]">
      <seq>cccgtaaagataatggctagcttctactatggctctttcctcccctattttcgccggtaaggcggagaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttcttcgagcttttggcacgtaacggtgttaagtttggcgaagctgtatggttcaaagctgcatctcaaattttcagcgagggcggacttgactacttgggaaaccctactttggttcatgcaccaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43741" stop="42432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43441" g_stop="42732" g_length="710"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="720" r_length="711" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730891" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="0.986" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43441" e_stop="42732"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATGGCT-GCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCAC</genome_strand>
        <mrna_strand>ATAATGGCTAGCTTCTACTATGGCTCTTTCCTCCCCTATTTTCGCCGGTAAGGCGGAGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCTTCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGTATGGTTCAAAGCTGCATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTACTTTGGTTCATGCACCAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344575" ref_strand="+" ref_description="SGN-E344575 [cTOF-14-I21]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42435"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42735" g_length="704"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="739" r_length="704" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344575" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>704</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42735"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697940" ref_strand="+" ref_description="SGN-E697940 [FA04DA12]">
      <seq>cgttcaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43772" stop="42435"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42735" g_length="704"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="742" r_length="704" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E697940" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>704</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E697940" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42735"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E724205" ref_strand="+" ref_description="SGN-E724205 [FC23BF01]">
      <seq>attgataacaacaaccaccataaagaattcatttctttttatttattaaaattaaaccctggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43737" stop="42435"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43437" g_stop="42735" g_length="703"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="762" r_length="703" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E724205" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>703</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E724205" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43437" e_stop="42735"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>TGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280394" ref_strand="+" ref_description="SGN-E280394 [cLER-1-H11]">
      <seq>ttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43481" stop="42439"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43181" g_stop="42739" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280394" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>443</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280394" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43181" e_stop="42739"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTA</genome_strand>
        <mrna_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327661" ref_strand="+" ref_description="SGN-E327661 [cTOC-20-J24]">
      <seq>tcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcanggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43767" stop="42440"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42740" g_length="729"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="729" r_length="729" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E327661" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327661" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42740"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</genome_strand>
        <mrna_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCANGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318420" ref_strand="+" ref_description="SGN-E318420 [cTOB-10-A10]">
      <seq>caagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctgtgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43536" stop="42440"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43236" g_stop="42740" g_length="497"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="497" r_length="497" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318420" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>497</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318420" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43236" e_stop="42740"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</genome_strand>
        <mrna_strand>CAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTGTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340778" ref_strand="+" ref_description="SGN-E340778 [cTOF-5-E24]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccactntaccctggtgtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42441"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42741" g_length="698"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="738" r_length="698" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340778" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>698</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42741"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTNTACCCTGGT-GTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340829" ref_strand="+" ref_description="SGN-E340829 [cTOF-5-J13]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgggaaggttggntgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42444"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42744" g_length="706"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="709" r_length="709" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340829" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340829" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42744"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTT-GTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG-AAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCA</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGGAAGGTTGGNTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343880" ref_strand="+" ref_description="SGN-E343880 [cTOF-12-N11]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggtngttgatccactttaccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaatggtagacttgctatgttctccatgtttggatttctttgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42445"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42745" g_length="724"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="729" r_length="729" r_score="0.945"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343880" ref_strand="+">
        <total_alignment_score>0.945</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42745"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG-AAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGA-TTCTTTGTTC</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTNGTTGATCCACTTTACCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTTCTTTGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341933" ref_strand="+" ref_description="SGN-E341933 [cTOF-9-P15]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaagcttttgctgagctcaaggtgaaagagatcaagaatggtagacttgctatgttctccatgtttggattctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42448"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42748" g_length="721"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="722" r_length="722" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E341933" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>721</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E341933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42748"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAAGCTTTTGCTGAGCTCAAGGTGAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344973" ref_strand="+" ref_description="SGN-E344973 [cTOF-22-K8]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43780" stop="42448"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42748" g_length="691"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="734" r_length="692" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344973" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>691</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344973" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42748"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345111" ref_strand="+" ref_description="SGN-E345111 [cTOF-22-H17]">
      <seq>ctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43734" stop="42449"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43434" g_stop="42749" g_length="686"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="686" r_length="686" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345111" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>686</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345111" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43434" e_stop="42749"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</genome_strand>
        <mrna_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335509" ref_strand="+" ref_description="SGN-E335509 [cTOE-2-I4]">
      <seq>gatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43500" stop="42449"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43200" g_stop="42749" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="452" r_length="452" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E335509" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E335509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43200" e_stop="42749"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</genome_strand>
        <mrna_strand>GATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340886" ref_strand="+" ref_description="SGN-E340886 [cTOF-5-C21]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42450"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42750" g_length="689"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="728" r_length="689" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340886" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>689</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340886" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42750"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346059" ref_strand="+" ref_description="SGN-E346059 [cTOF-24-B22]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggtttgttgatccacctttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaacggcagacttgctatgttctccatgtttggattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42451"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42751" g_length="699"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="702" r_length="702" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346059" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346059" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42751"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGG-TTGTTGATCCA-CTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG-AAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCT</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTTGTTGATCCACCTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344452" ref_strand="+" ref_description="SGN-E344452 [cTOF-14-I24]">
      <seq>aaaacacaattcatttctttttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42454"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42754" g_length="685"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="721" r_length="685" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344452" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>685</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344452" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42754"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGAT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344933" ref_strand="+" ref_description="SGN-E344933 [cTOF-21-N12]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgntgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaagagatcaaaaatggtagacttgctatgttctccatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42459"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42759" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="718" r_length="682" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344933" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42759"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGNTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGAGATCAAAAATGGTAGACTTGCTATGTTCTCCATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339073" ref_strand="+" ref_description="SGN-E339073 [cTOF-6-E3]">
      <seq>gagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgnaagagatcaagaacggcagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43747" stop="42462"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43447" g_stop="42762" g_length="686"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="686" r_length="686" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339073" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>686</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339073" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43447" e_stop="42762"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>GAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGNAAGAGATCAAGAACGGCAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339020" ref_strand="+" ref_description="SGN-E339020 [cTOF-6-B3]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggggagggntgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42462"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42762" g_length="677"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="715" r_length="679" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339020" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339020" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42762"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGGGAGGGNTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342473" ref_strand="+" ref_description="SGN-E342473 [cTOF-8-B21]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttacccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaagggaatcaagaatggtagacttgctatgttctcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42463"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42763" g_length="676"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="718" r_length="678" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342473" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342473" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42763"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTA-CCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGGAATCAAGAATGGTAGACTTGCTATGTTCTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735376" ref_strand="+" ref_description="SGN-E735376 [LC01BC11]">
      <seq>cggttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtaactttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaacgagatcaacaacggcagacttgctatgttctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43745" stop="42464"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43447" g_stop="42764" g_length="684"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="684" r_length="684" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735376" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>684</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43447" e_stop="42764"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCC</genome_strand>
        <mrna_strand>CGGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAACTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAACGAGATCAACAACGGCAGACTTGCTATGTTCTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348916" ref_strand="+" ref_description="SGN-E348916 [cTOF-29-O15]">
      <seq>tttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttancctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaatggtagacttgctatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42467"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43461" g_stop="42767" g_length="695"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="699" r_length="699" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348916" ref_strand="+">
        <total_alignment_score>0.947</total_alignment_score>
        <cumulative_length_of_scored_exons>695</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348916" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43461" e_stop="42767"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG-CCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG-AAGGAGATCAAGAACGGCAGACTTGCTATGTTC</genome_strand>
        <mrna_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTANCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAATGGTAGACTTGCTATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728377" ref_strand="+" ref_description="SGN-E728377 [LA17CE06]">
      <seq>taacagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctncaggtgaaggagatcaagaacggcagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42471"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42771" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728377" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728377" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</genome_strand>
        <mrna_strand>TAACAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTNCAGGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728286" ref_strand="+" ref_description="SGN-E728286 [LA17BC08]">
      <seq>tcagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42471"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42771" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728286" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728286" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</genome_strand>
        <mrna_strand>TCAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316960" ref_strand="+" ref_description="SGN-E316960 [cTOA-27-D10]">
      <seq>ccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttccaagctggatctccaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcccgttgagggttaccgtattgctggtgggcctcttggtgagggtgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagaccagaggcttttgctgagctcaaggtgaagagatcaagaatggtagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43609" stop="42471"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43309" g_stop="42771" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E316960" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316960" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43309" e_stop="42771"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG-CCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</genome_strand>
        <mrna_strand>CCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCCAAGCTGGATCTCCAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGA-CCAGAGGCTTTTGCTGAGCTCAAGGTGAA-GAGATCAAGAATGGTAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728781" ref_strand="+" ref_description="SGN-E728781 [LA18DG04]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcgggatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43754" stop="42472"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42772" g_length="683"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="683" r_length="683" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728781" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>683</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728781" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42772"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTA</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCGGGATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728838" ref_strand="+" ref_description="SGN-E728838 [LA19AE03]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccacaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42472"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43297" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="178" r_length="142" r_score="0.951"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="43296" i_stop="43210" i_length="87">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="43209" g_stop="42772" g_length="438"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="616" r_length="438" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728838" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>580</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728838" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43297"/>
          <exon e_start="43209" e_stop="42772"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTG.......................................................................................GTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCACAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728847" ref_strand="+" ref_description="SGN-E728847 [LA19AF04]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42476"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42776" g_length="675"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="675" r_length="675" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E728847" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>675</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728847" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42776"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTT</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340866" ref_strand="+" ref_description="SGN-E340866 [cTOF-5-J24]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttaccctggntggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaggtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42505"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42800" g_length="669"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="671" r_length="671" r_score="0.949"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340866" ref_strand="+">
        <total_alignment_score>0.949</total_alignment_score>
        <cumulative_length_of_scored_exons>669</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340866" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42800"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCTGG-TGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCTGGNTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC-AGGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285240" ref_strand="+" ref_description="SGN-E285240 [cLER-20-H12]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaagcttttgctgagctcaaagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43729" stop="42500"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43429" g_stop="42800" g_length="630"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="630" r_length="630" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285240" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>630</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285240" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43429" e_stop="42800"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTG</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAAGCTTTTGCTGAGCTCAAAGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343298" ref_strand="+" ref_description="SGN-E343298 [cTOF-17-B2]">
      <seq>cgagtttttttttttttttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43772" stop="42504"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43481" g_stop="42804" g_length="678"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="678" r_length="678" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343298" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>678</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343298" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43481" e_stop="42804"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAAATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAA</genome_strand>
        <mrna_strand>CGAGTTTTTTTTTTTTTTTTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345831" ref_strand="+" ref_description="SGN-E345831 [cTOF-18-L4]">
      <seq>ttaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42505"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42805" g_length="647"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="647" r_length="647" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345831" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>647</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296811" ref_strand="+" ref_description="SGN-E296811 [cLET-26-D3]">
      <seq>agctgaccctgaaacattcgctaataaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43478" stop="42505"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43178" g_stop="42805" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="374" r_length="374" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296811" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>374</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43178" e_stop="42805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>AGCTGACCCTGAAACATTCGCTAATAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345804" ref_strand="+" ref_description="SGN-E345804 [cTOF-18-J13]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttaccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42806" g_length="633"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="671" r_length="635" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345804" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>633</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345804" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327646" ref_strand="+" ref_description="SGN-E327646 [cTOC-20-F6]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaaacccagangcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42806" g_length="633"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="671" r_length="632" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E327646" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>633</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327646" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAA-ACCCAGANGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346321" ref_strand="+" ref_description="SGN-E346321 [cTOF-23-H22]">
      <seq>gctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43720" stop="42506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43420" g_stop="42806" g_length="615"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="615" r_length="615" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E346321" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>615</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E346321" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43420" e_stop="42806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>GCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318555" ref_strand="+" ref_description="SGN-E318555 [cTOB-10-N16]">
      <seq>gtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43581" stop="42506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43281" g_stop="42806" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="476" r_length="476" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318555" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>476</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43281" e_stop="42806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>GTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338546" ref_strand="+" ref_description="SGN-E338546 [cTOE-15-E13]">
      <seq>tttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43529" stop="42506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43229" g_stop="42806" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="424" r_length="424" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E338546" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E338546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43229" e_stop="42806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>TTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344071" ref_strand="+" ref_description="SGN-E344071 [cTOF-12-F16]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42507"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42807" g_length="662"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="665" r_length="665" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344071" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>662</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344071" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42807"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327941" ref_strand="+" ref_description="SGN-E327941 [cTOC-22-J19]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgaccattgggccttgctgaagaccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42507"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42807" g_length="654"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E327941" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>654</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327941" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42807"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGA-CCATTGGGCCTTGCTGAAGA-CCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345046" ref_strand="+" ref_description="SGN-E345046 [cTOF-22-H16]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43735" stop="42507"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42807" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="629" r_length="629" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345046" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345046" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42807"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318482" ref_strand="+" ref_description="SGN-E318482 [cTOB-10-N20]">
      <seq>gtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43581" stop="42507"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43281" g_stop="42807" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318482" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318482" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43281" e_stop="42807"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>GTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344623" ref_strand="+" ref_description="SGN-E344623 [cTOF-14-O12]">
      <seq>cgagtttttttttttttttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43772" stop="42509"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43481" g_stop="42809" g_length="673"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="673" r_length="673" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344623" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>673</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344623" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43481" e_stop="42809"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAAATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</genome_strand>
        <mrna_strand>CGAGTTTTTTTTTTTTTTTTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314303" ref_strand="+" ref_description="SGN-E314303 [cTOA-21-E24]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattggggccttgctgaagacccagaggcttttgctgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42509"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42809" g_length="657"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="658" r_length="658" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E314303" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>657</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E314303" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42809"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATT-GGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343164" ref_strand="+" ref_description="SGN-E343164 [cTOF-17-D23]">
      <seq>agaactagtctcgagttttttttttctttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggtngttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43786" stop="42511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42811" g_length="658"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="683" r_length="660" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343164" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>658</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343164" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>TTCTTTTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTNGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345848" ref_strand="+" ref_description="SGN-E345848 [cTOF-24-E17]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagnttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggtggttgatccactttcccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43466" g_stop="42811" g_length="656"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="659" r_length="659" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345848" ref_strand="+">
        <total_alignment_score>0.947</total_alignment_score>
        <cumulative_length_of_scored_exons>656</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345848" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43466" e_stop="42811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAG-TTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGNTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTGGTTGATCCACTTTCCCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348357" ref_strand="+" ref_description="SGN-E348357 [cTOF-27-E1]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctgntggtagctttgacccattgggccttgctgaagacccnnagagctttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42811" g_length="639"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="639" r_length="639" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348357" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348357" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGNTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCNNAGAGCTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318193" ref_strand="+" ref_description="SGN-E318193 [cTOA-29-H19]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgangttgttgatccactttaccctggtggtagctttgacccatgggccttgctgaagaaccagagcttttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42512"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42812" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="664" r_length="625" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318193" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318193" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42812"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGANGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCA-TGGGCCTTGCTGAAGAACCAGA-GCTTTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697342" ref_strand="+" ref_description="SGN-E697342 [FA02BB05]">
      <seq>ccctttagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggcgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggctcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcccgttgagggtaaccgtattgctggtgggcctcttggcgaagttgctgatccactttacccaggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43452" g_stop="42831" g_length="622"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="623" r_length="623" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E697342" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>622</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E697342" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43452" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG-CCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>CCCTTTAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGCGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGCTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCCGTTGAGGGTAACCGTATTGCTGGTGGGCCTCTTGGCGAAGTTGCTGATCCACTTTACCCAGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347065" ref_strand="+" ref_description="SGN-E347065 [cTOF-25-P11]">
      <seq>gagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtctggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgacgttgttgatccactttaccctgatggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43747" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43447" g_stop="42831" g_length="617"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="617" r_length="617" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347065" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>617</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347065" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43447" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>GAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTCTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGACGTTGTTGATCCACTTTACCCTGATGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345445" ref_strand="+" ref_description="SGN-E345445 [cTOF-13-N7]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgacggttaccgtattgctggtgggcctcttggtgaggttgntgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42831" g_length="608"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="642" r_length="608" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345445" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>608</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345445" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGACGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345242" ref_strand="+" ref_description="SGN-E345242 [cTOF-13-K12]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42831" g_length="608"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="644" r_length="608" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345242" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>608</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345979" ref_strand="+" ref_description="SGN-E345979 [cTOF-24-E3]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42831" g_length="608"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="649" r_length="608" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345979" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>608</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345979" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E711755" ref_strand="+" ref_description="SGN-E711755 [FB02DE09]">
      <seq>tgaaatnagtggaaatgggagaattataaccaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcagaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcattttggtgaggttgttgatcccctttatcctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43664" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43364" g_stop="42831" g_length="534"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="534" r_length="534" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E711755" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>534</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E711755" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43364" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>TGAAATNAGTGGAAATGGGAGAATTATAACCAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCAGAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCATTTTGGTGAGGTTGTTGATCCCCTTTATCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295644" ref_strand="+" ref_description="SGN-E295644 [cLET-25-E14]">
      <seq>tgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43622" stop="42531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43322" g_stop="42831" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295644" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295644" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43322" e_stop="42831"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>TGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326663" ref_strand="+" ref_description="SGN-E326663 [cTOC-17-O20]">
      <seq>tttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgntgatccactttaccctggtggtagctttgacccattgggccttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42532"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43463" g_stop="42832" g_length="632"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="632" r_length="632" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E326663" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326663" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43463" e_stop="42832"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</genome_strand>
        <mrna_strand>TTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326660" ref_strand="+" ref_description="SGN-E326660 [cTOC-17-O4]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgttgatccactttaccctggtggtagctttgacccattggccttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42532"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42832" g_length="607"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="645" r_length="606" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E326660" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>607</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326660" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42832"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATT-GGCCTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348561" ref_strand="+" ref_description="SGN-E348561 [cTOF-30-L24]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggtttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgtgccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42533"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42833" g_length="606"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="639" r_length="606" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348561" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="0.948" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348561" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42833"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGTTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGTGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343010" ref_strand="+" ref_description="SGN-E343010 [cTOF-11-G7]">
      <seq>atggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43723" stop="42533"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43423" g_stop="42833" g_length="591"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="591" r_length="591" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343010" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>591</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343010" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43423" e_stop="42833"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</genome_strand>
        <mrna_strand>ATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328503" ref_strand="+" ref_description="SGN-E328503 [cTOC-23-K15]">
      <seq>gtgccgaattcggcacgaggaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgttgatccacttttacctggtggtagctttgacccattgggccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42534"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42834" g_length="605"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="665" r_length="605" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E328503" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>605</cumulative_length_of_scored_exons>
        <coverage percentage="0.910" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328503" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42834"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGTTGATCCACTTTTACCTGGTGGTAGCTTTGACCCATTGGGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285228" ref_strand="+" ref_description="SGN-E285228 [cLER-20-B16]">
      <seq>attaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42535"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43452" g_stop="42835" g_length="618"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="618" r_length="618" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285228" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>618</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285228" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43452" e_stop="42835"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTG</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E334587" ref_strand="+" ref_description="SGN-E334587 [cTOD-23-M11]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgntgatccactttaccctggtggtagctttgacccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42544"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42844" g_length="595"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="635" r_length="596" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E334587" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>595</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E334587" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42844"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGG-CCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCAT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGAACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345211" ref_strand="+" ref_description="SGN-E345211 [cTOF-13-M9]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42555"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42855" g_length="584"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="623" r_length="584" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345211" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345211" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42855"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290858" ref_strand="+" ref_description="SGN-E290858 [cLET-10-D1]">
      <seq>tcataatggctgcttctactatggctctatcctcctctactttcgccggtaaggcggggaaactgtcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgagttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagtcggagggtattcattgcaaatgggccacgcttggtgctcttggatgtgcattccccgagcttttggcacgtaacggtgttaagtttggcgaagctggatggttcaaagctggatctcaaattttcaccgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggctcgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggagggcctcttggtgagggtgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43743" stop="42560"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43443" g_stop="42860" g_length="584"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="584" r_length="584" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290858" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290858" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43443" e_stop="42860"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTCTACTATGGCTCTATCCTCCTCTACTTTCGCCGGTAAGGCGGGGAAACTGTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGAGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTCGGAGGGTATTCATTGCAAATGGGCCACGCTTGGTGCTCTTGGATGTGCATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGGATGGTTCAAAGCTGGATCTCAAATTTTCACCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTCGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGAGGGCCTCTTGGTGAGGGTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E325835" ref_strand="+" ref_description="SGN-E325835 [cTOC-12-H1]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaagttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagttaggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgcgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43780" stop="42560"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42860" g_length="579"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="621" r_length="579" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E325835" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E325835" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42860"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAAGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTAGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGCGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296245" ref_strand="+" ref_description="SGN-E296245 [cLET-24-D24]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42560"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42860" g_length="579"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="612" r_length="579" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296245" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296245" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42860"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E321398" ref_strand="+" ref_description="SGN-E321398 [cTOB-23-G15]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42564"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43466" g_stop="42864" g_length="603"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="603" r_length="603" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E321398" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43466" e_stop="42864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCC</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E359489" ref_strand="+" ref_description="SGN-E359489 [cLHT-31-N9]">
      <seq>acaattcatttgtttttattaattattaaaccatggctgcttctacaatggctctatcttcctctacttttgccggtaaagcggtaaaactctcaccatcttcttctgaaatcagtggaaatggaagaatcaccatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccccggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcacgtaacggtgttaaatttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagctgttgaaggttaccgtgttgctggtgggcctcttggtgaggttgttgatccactttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42566"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42866" g_length="573"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="605" r_length="573" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E359489" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>573</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E359489" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42866"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTAC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTATCTTCCTCTACTTTTGCCGGTAAAGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGAAGAATCACCATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCCGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAATTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAAGGTTACCGTGTTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320957" ref_strand="+" ref_description="SGN-E320957 [cTOB-13-I20]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttggtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42586"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42886" g_length="553"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="588" r_length="553" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E320957" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297993" ref_strand="+" ref_description="SGN-E297993 [cLET-38-J10]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42587"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42887" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="589" r_length="552" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297993" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297993" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42887"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344371" ref_strand="+" ref_description="SGN-E344371 [cTOF-16-J4]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42588"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43466" g_stop="42888" g_length="579"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="579" r_length="579" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344371" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344371" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43466" e_stop="42888"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283467" ref_strand="+" ref_description="SGN-E283467 [cLER-12-D12]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43733" stop="42588"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43433" g_stop="42888" g_length="546"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="546" r_length="546" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283467" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>546</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283467" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43433" e_stop="42888"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345570" ref_strand="+" ref_description="SGN-E345570 [cTOF-18-L6]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42589"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42889" g_length="577"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="577" r_length="577" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E345570" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>577</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345570" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322397" ref_strand="+" ref_description="SGN-E322397 [cTOB-24-H4]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42589"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42889" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="590" r_length="550" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E322397" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>550</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322397" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340337" ref_strand="+" ref_description="SGN-E340337 [cTOF-2-M18]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42589"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42889" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="585" r_length="550" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340337" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>550</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340337" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342316" ref_strand="+" ref_description="SGN-E342316 [cTOF-8-B15]">
      <seq>acaattcacttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43766" stop="42589"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42889" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="585" r_length="550" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342316" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>550</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342316" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729360" ref_strand="+" ref_description="SGN-E729360 [LA20DC11]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggagggcctctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42590"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42890" g_length="549"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="585" r_length="549" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E729360" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>549</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729360" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42890"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGAGGGCCTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320366" ref_strand="+" ref_description="SGN-E320366 [cTOB-22-A20]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctangtttgttcatgcancaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42591"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42891" g_length="548"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="587" r_length="548" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E320366" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42891"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTANGTTTGTTCATGCANCAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348493" ref_strand="+" ref_description="SGN-E348493 [cTOF-30-M12]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42591"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42891" g_length="548"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="583" r_length="548" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E348493" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42891"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293975" ref_strand="+" ref_description="SGN-E293975 [cLET-13-J7]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42599"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42899" g_length="540"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="581" r_length="540" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293975" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>540</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293975" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E334566" ref_strand="+" ref_description="SGN-E334566 [cTOD-23-C13]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggggaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42901" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="577" r_length="538" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E334566" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E334566" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGGAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295926" ref_strand="+" ref_description="SGN-E295926 [cLET-27-F15]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggagttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42603"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42903" g_length="536"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="577" r_length="536" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295926" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295926" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42903"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGAGTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339060" ref_strand="+" ref_description="SGN-E339060 [cTOF-6-L12]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42604"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42904" g_length="562"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="562" r_length="562" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E339060" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>562</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E339060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42904"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288931" ref_strand="+" ref_description="SGN-E288931 [cLES-17-C8]">
      <seq>ttaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43738" stop="42607"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43445" g_stop="42907" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="539" r_length="539" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288931" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288931" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43445" e_stop="42907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTA</genome_strand>
        <mrna_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323636" ref_strand="+" ref_description="SGN-E323636 [cTOC-2-N8]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43780" stop="42610"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42910" g_length="529"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="571" r_length="529" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E323636" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>529</cumulative_length_of_scored_exons>
        <coverage percentage="0.926" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328480" ref_strand="+" ref_description="SGN-E328480 [cTOC-23-A13]">
      <seq>tttattaaaattaaaccatggctgcttctacaatggctcttttctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42612"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43455" g_stop="42912" g_length="544"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="544" r_length="544" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E328480" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>544</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328480" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43455" e_stop="42912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</genome_strand>
        <mrna_strand>TTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTTCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200537" ref_strand="+" ref_description="SGN-E200537 [cLEB-8-P15]">
      <seq>gcacgagctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaaagtgtgttgatgggagccgttgagggtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43717" stop="42612"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43424" g_stop="42912" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="513" r_length="513" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E200537" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E200537" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43424" e_stop="42912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</genome_strand>
        <mrna_strand>GCACGAGCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAAGTGTGTTGATGGGAGCCGTTGAGGGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288225" ref_strand="+" ref_description="SGN-E288225 [cLES-16-A13]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacagatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagcttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagcttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42618"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42918" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288225" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288225" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42918"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACAGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGCTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGCTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E298968" ref_strand="+" ref_description="SGN-E298968 [cLET-42-K8]">
      <seq>tctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43463" g_stop="42923" g_length="541"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="541" r_length="541" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E298968" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298968" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43463" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286369" ref_strand="+" ref_description="SGN-E286369 [cLES-11-F23]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcccgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42923" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E286369" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E286369" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCCGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286928" ref_strand="+" ref_description="SGN-E286928 [cLES-6-E7]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42923" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E286928" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E286928" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285188" ref_strand="+" ref_description="SGN-E285188 [cLER-20-F5]">
      <seq>tcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43743" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43443" g_stop="42923" g_length="521"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="521" r_length="521" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285188" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285188" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43443" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297904" ref_strand="+" ref_description="SGN-E297904 [cLET-38-I24]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42923" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="551" r_length="516" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297904" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297904" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286556" ref_strand="+" ref_description="SGN-E286556 [cLES-12-C23]">
      <seq>atggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43738" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42923" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="516" r_length="516" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E286556" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E286556" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324472" ref_strand="+" ref_description="SGN-E324472 [cTOC-6-N3]">
      <seq>aaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43693" stop="42623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43394" g_stop="42923" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="472" r_length="472" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E324472" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43394" e_stop="42923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287938" ref_strand="+" ref_description="SGN-E287938 [cLES-7-G13]">
      <seq>tttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43761" stop="42624"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43459" g_stop="42924" g_length="536"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="536" r_length="536" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E287938" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43459" e_stop="42924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341582" ref_strand="+" ref_description="SGN-E341582 [cTOE-23-H12]">
      <seq>attaaaccatggctgcttctacaatggctcttttctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattactgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42624"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43446" g_stop="42924" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="523" r_length="523" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E341582" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E341582" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43446" e_stop="42924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>ATTAAACCATGGCTGCTTCTACAATGGCTCTTTTCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACTGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310471" ref_strand="+" ref_description="SGN-E310471 [cTOA-9-O15]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatatgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42624"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42924" g_length="515"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="554" r_length="515" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E310471" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>515</cumulative_length_of_scored_exons>
        <coverage percentage="0.930" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATATGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297209" ref_strand="+" ref_description="SGN-E297209 [cLET-29-H8]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43729" stop="42624"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43429" g_stop="42924" g_length="506"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="506" r_length="506" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297209" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43429" e_stop="42924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366524" ref_strand="+" ref_description="SGN-E366524 [cLPT-13-L8]">
      <seq>atttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccctagtttggtccatgcacaaagcattttggctatttgggcttgccaagttgtgctgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43764" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43462" g_stop="42925" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E366524" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366524" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43462" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCTAGTTTGGTCCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGCTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294527" ref_strand="+" ref_description="SGN-E294527 [cLET-22-E4]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42925" g_length="525"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="525" r_length="525" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294527" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294527" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285690" ref_strand="+" ref_description="SGN-E285690 [cLES-5-B18]">
      <seq>ttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43744" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43444" g_stop="42925" g_length="520"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="520" r_length="520" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285690" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285690" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43444" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277626" ref_strand="+" ref_description="SGN-E277626 [cLER-6-K1]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42925" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="549" r_length="514" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E277626" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277626" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288334" ref_strand="+" ref_description="SGN-E288334 [cLES-16-L12]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42925" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="555" r_length="514" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288334" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="0.926" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288334" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300602" ref_strand="+" ref_description="SGN-E300602 [cLET-45-O4]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42925" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="555" r_length="514" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E300602" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="0.926" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347706" ref_strand="+" ref_description="SGN-E347706 [cTOF-26-I9]">
      <seq>ttttttttttttttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagttttggtcatgcacaaagcattttggctttttgggcttgccaagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43772" stop="42626"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43476" g_stop="42926" g_length="551"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="551" r_length="551" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347706" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347706" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43476" e_stop="42926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>TTTTTTTTTTTTTTTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTTGGTCATGCACAAAGCATTTTGGCTTTTTGGGCTTGCCAAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324676" ref_strand="+" ref_description="SGN-E324676 [cTOC-8-C1]">
      <seq>tcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43767" stop="42626"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="42926" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E324676" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324676" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="42926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735798" ref_strand="+" ref_description="SGN-E735798 [LC03AD08]">
      <seq>tcaaaacacaatccatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggcgaaactgtatggttccaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42626"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42926" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="543" r_length="501" r_score="0.942"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E735798" ref_strand="+">
        <total_alignment_score>0.942</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTA--T---T--TGA-----CTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAACTGTATGGTTCCAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316221" ref_strand="+" ref_description="SGN-E316221 [cTOA-23-I18]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42927" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="539" r_length="539" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E316221" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316221" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320758" ref_strand="+" ref_description="SGN-E320758 [cTOB-27-P6]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaacctagtttngttcatgcacaaagcatttttgctatttgggctttgcaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42927" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="547" r_length="512" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E320758" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320758" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAAACCTAGTTTNGTTCATGCACAAAGCATTTTTGCTATTTGGGCTTTGCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E333604" ref_strand="+" ref_description="SGN-E333604 [cTOD-22-B5]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagntgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42927" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="551" r_length="512" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E333604" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E333604" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGNTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328563" ref_strand="+" ref_description="SGN-E328563 [cTOC-23-B1]">
      <seq>ggctctttcctcctctaccttcgccggaaagacggtgaaactcgtaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43721" stop="42627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43421" g_stop="42927" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E328563" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328563" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43421" e_stop="42927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>GGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGTACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319622" ref_strand="+" ref_description="SGN-E319622 [cTOB-12-G9]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42928" g_length="511"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="546" r_length="511" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319622" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>511</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319622" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282592" ref_strand="+" ref_description="SGN-E282592 [cLER-15-C21]">
      <seq>aaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42929" g_length="521"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="521" r_length="521" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282592" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282592" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42929"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATG</genome_strand>
        <mrna_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203304" ref_strand="+" ref_description="SGN-E203304 [cLEB-3-F9]">
      <seq>gcacgaggtttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcaactgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43765" stop="42630"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42930" g_length="536"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="544" r_length="536" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E203304" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203304" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42930"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</genome_strand>
        <mrna_strand>TTTTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAACTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291919" ref_strand="+" ref_description="SGN-E291919 [cLET-7-E17]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccgtaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacanatgnaangnggnnnnaaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42630"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42930" g_length="509"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="561" r_length="520" r_score="0.939"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291919" ref_strand="+">
        <total_alignment_score>0.939</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="0.907" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291919" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42930"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACA-ATG--A---GG----AA-GACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGTAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACANATGNAANGNGGNNNNAAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290870" ref_strand="+" ref_description="SGN-E290870 [cLET-10-F21]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42632"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42932" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="548" r_length="507" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290870" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="0.925" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42932"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284448" ref_strand="+" ref_description="SGN-E284448 [cLER-16-P17]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42633"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42933" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284448" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284448" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42933"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTT</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316933" ref_strand="+" ref_description="SGN-E316933 [cTOA-27-J9]">
      <seq>ttattcattgcagatgggccatgcttggtgctcttggatgtgtttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43437" stop="42644"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43137" g_stop="42944" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="195" r_length="195" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E316933" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>194</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43137" e_stop="42944"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTG-TTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGC</genome_strand>
        <mrna_strand>TTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319970" ref_strand="+" ref_description="SGN-E319970 [cTOB-31-O17]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42945" g_length="494"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="527" r_length="494" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319970" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319970" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293650" ref_strand="+" ref_description="SGN-E293650 [cLET-21-C21]">
      <seq>gagttcataatggctttttctattatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggcgattaccgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcacatgggccatgcttggtgctctaggatgtgttttccccgagcttttggcacgtaacggtgttaagatgggcgaagctgtatggttcaaagcctggagctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattatggctatttgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43747" stop="42646"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43447" g_stop="42946" g_length="502"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="503" r_length="503" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293650" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>502</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293650" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43447" e_stop="42946"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG-CTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTT</genome_strand>
        <mrna_strand>GAGTTCATAATGGCTTTTTCTATTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGCGATTACCGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGTGCTCTAGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGATGGGCGAAGCTGTATGGTTCAAAGCCTGGAGCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTATGGCTATTTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294143" ref_strand="+" ref_description="SGN-E294143 [cLET-13-N11]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42647"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42947" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="533" r_length="492" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294143" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366575" ref_strand="+" ref_description="SGN-E366575 [cLPT-13-I24]">
      <seq>tttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccctagtttggtccatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43764" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43461" g_stop="42948" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="0.936"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E366575" ref_strand="+">
        <total_alignment_score>0.936</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43461" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTCTTTTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCTAGTTTGGTCCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289129" ref_strand="+" ref_description="SGN-E289129 [cLES-18-D5]">
      <seq>tttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43461" g_stop="42948" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E289129" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289129" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43461" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300367" ref_strand="+" ref_description="SGN-E300367 [cLET-45-A5]">
      <seq>tttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43761" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43459" g_stop="42948" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="512" r_length="512" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E300367" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43459" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282872" ref_strand="+" ref_description="SGN-E282872 [cLER-15-L7]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42948" g_length="503"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="503" r_length="503" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282872" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319589" ref_strand="+" ref_description="SGN-E319589 [cTOB-15-J4]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42948" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="532" r_length="491" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319589" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319589" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341533" ref_strand="+" ref_description="SGN-E341533 [cTOE-23-E6]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43780" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42948" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="533" r_length="491" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E341533" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E341533" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294551" ref_strand="+" ref_description="SGN-E294551 [cLET-22-K22]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42948" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="528" r_length="491" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294551" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="0.930" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294551" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283874" ref_strand="+" ref_description="SGN-E283874 [cLER-13-M17]">
      <seq>ttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43730" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43430" g_stop="42948" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="483" r_length="483" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283874" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283874" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43430" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288966" ref_strand="+" ref_description="SGN-E288966 [cLES-17-O22]">
      <seq>tggtagcccatggcatggacctgaccgagtttagctcttgggcccattctctggtgaatcaccaaactatttgactggtgagttccctgctgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttgaaggttattcattgcagatgggccatgcttggtgctcttggatgtgtgttccccgagcttatagcacgtaacggcgttaagtttggtgaaactgtatgggtcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctactttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43598" stop="42648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43298" g_stop="42948" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288966" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>351</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288966" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43298" e_stop="42948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TGGTAGCCCATGGCATGGACCTGACCGAGTTTAGCTCTTGGGCCCATTCTCTGGTGAATCACCAAACTATTTGACTGGTGAGTTCCCTGCTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGAAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTGTTCCCCGAGCTTATAGCACGTAACGGCGTTAAGTTTGGTGAAACTGTATGGGTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTACTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282509" ref_strand="+" ref_description="SGN-E282509 [cLER-18-K24]">
      <seq>agagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43748" stop="42649"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43448" g_stop="42949" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282509" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>500</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43448" e_stop="42949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGG</genome_strand>
        <mrna_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340280" ref_strand="+" ref_description="SGN-E340280 [cTOF-2-C13]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggannnnaaactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacggaacggtggtaagtttggtgaagctgtatgggtcaaagctggatctcaannnttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42655"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42955" g_length="484"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="519" r_length="484" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E340280" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="0.933" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340280" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42955"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGANNNNAAACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGGAACGGTGGTAAGTTTGGTGAAGCTGTATGGGTCAAAGCTGGATCTCAANNNTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319467" ref_strand="+" ref_description="SGN-E319467 [cTOB-15-A9]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42655"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42955" g_length="484"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="525" r_length="484" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319467" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319467" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42955"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725969" ref_strand="+" ref_description="SGN-E725969 [LA08DE12]">
      <seq>atcaaaacacaattcatttctttttatttattaaaattagaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagnttggttcatgcacaaagcattttggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43738" stop="42656"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42956" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="527" r_length="483" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725969" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="0.917" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725969" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42956"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGNTTGGTTCATGCACAAAGCATTTTGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E202778" ref_strand="+" ref_description="SGN-E202778 [cLEB-1-H24]">
      <seq>gcacgagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattatcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42657"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42957" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E202778" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42957"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>GCACGAGTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTATCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282314" ref_strand="+" ref_description="SGN-E282314 [cLER-18-E5]">
      <seq>cataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42657"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43442" g_stop="42957" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="486" r_length="486" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282314" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282314" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43442" e_stop="42957"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288178" ref_strand="+" ref_description="SGN-E288178 [cLES-7-N17]">
      <seq>cccccgggctgcaggttctttttatttataaaatagaccatcgctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcttatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcaggggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42657"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43435" g_stop="42957" g_length="479"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="521" r_length="479" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288178" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>479</cumulative_length_of_scored_exons>
        <coverage percentage="0.919" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288178" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43435" e_stop="42957"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCTTATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCAGGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278685" ref_strand="+" ref_description="SGN-E278685 [cLER-10-J12]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42660"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42960" g_length="479"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="514" r_length="479" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E278685" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>479</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278685" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42960"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291513" ref_strand="+" ref_description="SGN-E291513 [cLET-6-G11]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43729" stop="42661"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43429" g_stop="42961" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="469" r_length="469" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E291513" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291513" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43429" e_stop="42961"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTT</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282384" ref_strand="+" ref_description="SGN-E282384 [cLER-18-O16]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43733" stop="42662"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43433" g_stop="42962" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="472" r_length="472" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282384" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282384" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43433" e_stop="42962"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATT</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297164" ref_strand="+" ref_description="SGN-E297164 [cLET-29-C14]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42664"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42964" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="516" r_length="475" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297164" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297164" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42964"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725888" ref_strand="+" ref_description="SGN-E725888 [LA08CE12]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattaccgatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43751" stop="42665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43451" g_stop="42965" g_length="487"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="487" r_length="487" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725888" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43451" e_stop="42965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACCGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725977" ref_strand="+" ref_description="SGN-E725977 [LA08DF08]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42965" g_length="474"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="510" r_length="474" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725977" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725977" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297812" ref_strand="+" ref_description="SGN-E297812 [cLET-38-L11]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctaatttggttcatgcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43749" stop="42669"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43449" g_stop="42969" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E297812" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297812" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43449" e_stop="42969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACA</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAATTTGGTTCATGCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295030" ref_strand="+" ref_description="SGN-E295030 [cLET-40-G11]">
      <seq>agttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43746" stop="42673"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43446" g_stop="42973" g_length="474"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="474" r_length="474" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295030" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295030" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43446" e_stop="42973"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725602" ref_strand="+" ref_description="SGN-E725602 [LA04AG08]">
      <seq>ggctgcttctacaatggctctttcctcctctacctttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcanagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43736" stop="42673"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43436" g_stop="42973" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="465" r_length="465" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725602" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43436" e_stop="42973"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTA-CTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCANAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283408" ref_strand="+" ref_description="SGN-E283408 [cLER-12-M8]">
      <seq>ggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43736" stop="42673"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43436" g_stop="42973" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="464" r_length="464" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283408" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283408" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43436" e_stop="42973"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725831" ref_strand="+" ref_description="SGN-E725831 [LA05DF09]">
      <seq>attaaaattaaaccatggctgcttatacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaacccta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42685"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43452" g_stop="42985" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725831" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>468</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43452" e_stop="42985"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTA</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTATACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299494" ref_strand="+" ref_description="SGN-E299494 [cLET-43-N16]">
      <seq>ttgcatttttttttatttattaaaattaaaccatggctgcttgtacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgtttagtacttgggcccattctctggtgaatcaccaaactatttgactggcgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaaaaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42686"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43470" g_stop="42986" g_length="485"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="485" r_length="485" r_score="0.942"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E299494" ref_strand="+">
        <total_alignment_score>0.942</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43470" e_stop="42986"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>TTGCATTTTTTTTTATTTATTAAAATTAAACCATGGCTGCTTGTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTTAGTACTTGGGCCCATTCTCTGGTGAATCACCAAACTATTTGACTGGCGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAAAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E365670" ref_strand="+" ref_description="SGN-E365670 [cLPT-8-E1]">
      <seq>aggacaattcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42686"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43444" g_stop="42986" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="487" r_length="459" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E365670" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E365670" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43444" e_stop="42986"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>TAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284990" ref_strand="+" ref_description="SGN-E284990 [cLER-19-M23]">
      <seq>ctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctctaggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggggcaaagctggatctcaaatttttagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43734" stop="42686"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43434" g_stop="42986" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284990" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284990" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43434" e_stop="42986"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTAGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGGGCAAAGCTGGATCTCAAATTTTTAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279462" ref_strand="+" ref_description="SGN-E279462 [cLER-11-P12]">
      <seq>ccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatgggatggtcctgaccgcgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43704" stop="42686"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43404" g_stop="42986" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="419" r_length="419" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279462" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>419</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43404" e_stop="42986"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>CCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGGATGGTCCTGACCGCGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698581" ref_strand="+" ref_description="SGN-E698581 [FA06DE05]">
      <seq>tcttctgaaaccagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcactaagaaccgcgagttggaggttattcattgccgatgggccatgcttgctgctcttggatgtgttttcccccagattttggcacgtaacggagttaagcttggtgaagctgcatggctaaaagctggatctcaaattttcagcgaggatggacttgactacttgggaaaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43669" stop="42687"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43369" g_stop="42987" g_length="383"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="383" r_length="383" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E698581" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>383</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698581" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43369" e_stop="42987"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCC</genome_strand>
        <mrna_strand>TCTTCTGAAACCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCACTAAGAACCGCGAGTTGGAGGTTATTCATTGCCGATGGGCCATGCTTGCTGCTCTTGGATGTGTTTTCCCCCAGATTTTGGCACGTAACGGAGTTAAGCTTGGTGAAGCTGCATGGCTAAAAGCTGGATCTCAAATTTTCAGCGAGGATGGACTTGACTACTTGGGAAACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294889" ref_strand="+" ref_description="SGN-E294889 [cLET-17-G23]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42688"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42988" g_length="451"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="486" r_length="451" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294889" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>451</cumulative_length_of_scored_exons>
        <coverage percentage="0.928" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294889" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42988"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294890" ref_strand="+" ref_description="SGN-E294890 [cLET-17-G23](-)">
      <seq>ggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccgtctttccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaataaataaaaagaaatgaattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42688" stop="43768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="42988" g_stop="43436" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294890" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294890" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="42988" e_stop="43436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCC</genome_strand>
        <mrna_strand>GGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284187" ref_strand="+" ref_description="SGN-E284187 [cLER-16-I19]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctactttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42690"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42990" g_length="471"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="471" r_length="471" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284187" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284187" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42990"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACTTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366040" ref_strand="+" ref_description="SGN-E366040 [cLPT-15-E14]">
      <seq>attcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggccgaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctgtggtaacccatggtatggccctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatctgactggcgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaacaatcgtgagttggaggctattcattgcagatgggccatgcttggagctcttgggtgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaaactgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42690"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43444" g_stop="42990" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="477" r_length="455" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E366040" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>455</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366040" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43444" e_stop="42990"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>TAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGCCGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTGTGGTAACCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATCTGACTGGCGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAACAATCGTGAGTTGGAGGCTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGGTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAACTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294821" ref_strand="+" ref_description="SGN-E294821 [cLET-17-H16]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42690"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42990" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="490" r_length="449" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294821" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.916" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294821" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42990"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324539" ref_strand="+" ref_description="SGN-E324539 [cTOC-9-K24]">
      <seq>tttctttttatttattaaaattaaaccatgggtgcttgggcaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43725" stop="42691"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43465" g_stop="42991" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E324539" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43465" e_stop="42991"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGGTGCTTGGGCAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319516" ref_strand="+" ref_description="SGN-E319516 [cTOB-15-A10]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42691"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42991" g_length="448"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="489" r_length="448" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E319516" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>448</cumulative_length_of_scored_exons>
        <coverage percentage="0.916" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319516" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42991"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295481" ref_strand="+" ref_description="SGN-E295481 [cLET-23-E24]">
      <seq>tttttttttgtacattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43467" g_stop="42993" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295481" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295481" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43467" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282640" ref_strand="+" ref_description="SGN-E282640 [cLER-15-C12]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="42993" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E282640" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>468</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725893" ref_strand="+" ref_description="SGN-E725893 [LA08CF05]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggcgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43754" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43454" g_stop="42993" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="462" r_length="462" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725893" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725893" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43454" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318928" ref_strand="+" ref_description="SGN-E318928 [cTOB-11-D6]">
      <seq>tttctttttatttattattttcaaaccatggctgcttgtacaatggcgctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaatccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43738" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42993" g_length="446"/>
          <reference_exon_boundary r_type="cDNA" r_start="28" r_stop="473" r_length="446" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318928" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>446</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318928" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ATGGCTGCTTGTACAATGGCGCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAATCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725883" ref_strand="+" ref_description="SGN-E725883 [LA08CE06]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatggttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42993" g_length="446"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="481" r_length="446" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725883" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>446</cumulative_length_of_scored_exons>
        <coverage percentage="0.927" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725883" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGGTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294213" ref_strand="+" ref_description="SGN-E294213 [cLET-14-E1]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggctcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42693"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="42993" g_length="446"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="481" r_length="446" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294213" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>446</cumulative_length_of_scored_exons>
        <coverage percentage="0.927" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294213" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="42993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGCTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279010" ref_strand="+" ref_description="SGN-E279010 [cLER-2-H24]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43733" stop="42695"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43433" g_stop="42995" g_length="439"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="439" r_length="439" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279010" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>439</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279010" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43433" e_stop="42995"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTG</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E265674" ref_strand="+" ref_description="SGN-E265674 [cLEI-14-J22]">
      <seq>ctttttatttattaaaattaaaccatggctgcgtgtacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggaccatactccggcgaagccccaagctatttgactggtgagatccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggatattcattgcagatgggccatgcttggtgctcttggatgtgtgttgctcgagcttttggcacgaaacggtgttaagttaggtgagagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43763" stop="42696"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43462" g_stop="42996" g_length="467"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E265674" ref_strand="+">
        <total_alignment_score>0.916</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E265674" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43462" e_stop="42996"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGA-AGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTT</genome_strand>
        <mrna_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCGTGTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGACCATACTCCGGCGAAGCCCCAAGCTATTTGACTGGTGAGATCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGATATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTGTTGCTCGAGCTTTTGGCACGAAACGGTGTTAAGTTAGGTGAGAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285779" ref_strand="+" ref_description="SGN-E285779 [cLES-5-I10]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42698"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="42998" g_length="453"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E285779" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285779" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="42998"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367376" ref_strand="+" ref_description="SGN-E367376 [cLPT-7-I4]">
      <seq>aaacacaatttatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggagttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42698"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43444" g_stop="42998" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="476" r_length="447" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E367376" ref_strand="+">
        <total_alignment_score>0.944</total_alignment_score>
        <cumulative_length_of_scored_exons>447</cumulative_length_of_scored_exons>
        <coverage percentage="0.939" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E367376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43444" e_stop="42998"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</genome_strand>
        <mrna_strand>TAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGAGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725465" ref_strand="+" ref_description="SGN-E725465 [LA03CC09]">
      <seq>tcaaaacacaattcacttctttttacttataaaagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccaacttcttctgaaatcagtggaaatgggagaacttacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttcccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttagcgagggcgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43766" stop="42708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43480" g_stop="43008" g_length="473"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="473" r_length="473" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725465" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43480" e_stop="43008"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAA-TTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTT-CCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGG</genome_strand>
        <mrna_strand>TCAAAACA-CAATTCACTTCTTTTTACTTATAAAAGTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCAACTTCTTCTGAAATCAGTGGAAATGGGAGAACTTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTT-AGCGAGGGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295280" ref_strand="+" ref_description="SGN-E295280 [cLET-20-J11]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42715"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43015" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="459" r_length="424" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E295280" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="0.924" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295280" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43015"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223169" ref_strand="+" ref_description="SGN-E223169 [cLEL-14-J22](-)">
      <seq>gaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaaagaacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42719" stop="43768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43019" g_stop="43468" g_length="450"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="450" r_length="450" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E223169" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>450</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E223169" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43019" e_stop="43468"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGAACTCTTAGAATGTACAAAAAAAGAA</genome_strand>
        <mrna_strand>GAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATAAACTCTTAGAAAGAACAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287556" ref_strand="+" ref_description="SGN-E287556 [cLES-9-N1]">
      <seq>acaattcatttctttttatttattaaaactaaaccatggctgcttgtacaatggctctttactactgtaccttcgccggaaagaccgcgaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccacgccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggggaatcaccacgctatttgactggggagttccctggtgattacggatgggacactgttgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggagggtattcattgcatatgggccatgcttggggctcttggatgagttttccccgagcttttggcacgtaacggtggtaagattggagaacctgtatggttcaaagctggatctcaaatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42720"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43020" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="454" r_length="419" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E287556" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>419</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287556" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43020"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTT</genome_strand>
        <mrna_strand>ATGGCTGCTTGTACAATGGCTCTTTACTACTGTACCTTCGCCGGAAAGACCGCGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCACGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGGGAATCACCACGCTATTTGACTGGGGAGTTCCCTGGTGATTACGGATGGGACACTGTTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGGTATTCATTGCATATGGGCCATGCTTGGGGCTCTTGGATGAGTTTTCCCCGAGCTTTTGGCACGTAACGGTGGTAAGATTGGAGAACCTGTATGGTTCAAAGCTGGATCTCAAATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300629" ref_strand="+" ref_description="SGN-E300629 [cLET-45-H23]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggccctgaccgtgttaagtacttgggcccattctctggtgaatcaccacgctatttgactggcgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttctccccgagcttttggcacgtaacggtgttaagtttgctgaagctgtatggatcaaagctggatctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42727"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43027" g_length="412"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="453" r_length="412" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E300629" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>412</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300629" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43027"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCACGCTATTTGACTGGCGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTCTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGCTGAAGCTGTATGGATCAAAGCTGGATCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284583" ref_strand="+" ref_description="SGN-E284583 [cLES-3-E1]">
      <seq>tactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttttgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctgctatggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaaacgatgatactggtgcagaccctgttgattacagatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttctggcacgtaacggtgttaaagtttggtgaagctgtatggttcaaagctggatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43727" stop="42729"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43427" g_stop="43029" g_length="399"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="400" r_length="400" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E284583" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284583" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43427" e_stop="43029"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTT-AAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATC</genome_strand>
        <mrna_strand>TACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTTTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTGCTATGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAACGATGATACTGGTGCAGACCCTGTTGATTACAGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTCTGGCACGTAACGGTGTTAAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328645" ref_strand="+" ref_description="SGN-E328645 [cTOC-23-P14]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacgatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatggtgtcttccccgagcttttggcacgtaacggtgttaagtttggagaagctgaatggttcaaagctgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43762" stop="42731"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43460" g_stop="43031" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="431" r_length="431" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E328645" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328645" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43460" e_stop="43031"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAT-GTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACGATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGGTGTCTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGAGAAGCTGAATGGTTCAAAGCTGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725495" ref_strand="+" ref_description="SGN-E725495 [LA03DC03]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggagaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatggcacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggctattcattgcagatggcccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttcagtttggtgacgctgtatggttcatagctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43774" stop="42733"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43033" g_length="406"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="442" r_length="406" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E725495" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>406</cumulative_length_of_scored_exons>
        <coverage percentage="0.919" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725495" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43033"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGAGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGCACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGCTATTCATTGCAGATGGCCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTCAGTTTGGTGACGCTGTATGGTTCATAGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280209" ref_strand="+" ref_description="SGN-E280209 [cLEL-7-J7](-)">
      <seq>agctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttccccggagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttgcgcattgtaattctcccatttcccctcatttcagaagaagatggtgcgagtttcaccgtctttccgctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42734" stop="43697"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43034" g_stop="43397" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="364" r_length="364" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280209" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>364</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43034" e_stop="43397"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCG</genome_strand>
        <mrna_strand>AGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGGGCTTCCCCGGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTGCGCATTGTAATTCTCCCATTTCCCCTCATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296632" ref_strand="+" ref_description="SGN-E296632 [cLET-39-P18]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43779" stop="42736"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43036" g_length="403"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="444" r_length="403" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296632" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>403</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296632" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43036"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278669" ref_strand="+" ref_description="SGN-E278669 [cLER-10-B16]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttctccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42745"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43468" g_stop="43045" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E278669" ref_strand="+">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278669" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43468" e_stop="43045"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTC-TTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTAT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTCTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279801" ref_strand="+" ref_description="SGN-E279801 [cLER-8-I4]">
      <seq>ttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43702" stop="42757"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43402" g_stop="43057" g_length="346"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="346" r_length="346" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279801" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>346</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279801" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43402" e_stop="43057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTG</genome_strand>
        <mrna_strand>TTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280151" ref_strand="+" ref_description="SGN-E280151 [cLEL-7-A24](-)">
      <seq>taacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagagggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42763" stop="43742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43063" g_stop="43443" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="381" r_length="381" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280151" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>381</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280151" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43063" e_stop="43443"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGA</genome_strand>
        <mrna_strand>TAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGAGGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCCTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290408" ref_strand="+" ref_description="SGN-E290408 [cLES-20-F13]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43750" stop="42767"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43450" g_stop="43067" g_length="384"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="384" r_length="384" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290408" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>384</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290408" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43450" e_stop="43067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGT</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323991" ref_strand="+" ref_description="SGN-E323991 [cTOC-3-H23]">
      <seq>aaacacaattcatttctgtttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctattagactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42769"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43069" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="409" r_length="370" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E323991" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43069"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACG</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTAGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279358" ref_strand="+" ref_description="SGN-E279358 [cLEL-4-L6](-)">
      <seq>gttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcgcgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgacagtagaggaggaaagagccatagtagaagcagccattataaacctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42770" stop="43749"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43070" g_stop="43451" g_length="382"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="383" r_length="383" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279358" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>382</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43070" e_stop="43451"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGAA-CTCTTAG</genome_strand>
        <mrna_strand>GTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCGCGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGACAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATAAACCTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294214" ref_strand="+" ref_description="SGN-E294214 [cLET-14-E5]">
      <seq>tcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43714" stop="42770"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43414" g_stop="43070" g_length="345"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="345" r_length="345" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294214" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>345</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43414" e_stop="43070"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAAC</genome_strand>
        <mrna_strand>TCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280067" ref_strand="+" ref_description="SGN-E280067 [cLEL-7-B6](-)">
      <seq>ttacgtgccaaaagctcggggaaaacacatcccagagcaccaagcatggcccatctgcaatgaataacctcccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagcctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42771" stop="43742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43071" g_stop="43443" g_length="373"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280067" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>373</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43071" e_stop="43443"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCC-AACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGA</genome_strand>
        <mrna_strand>TTACGTGCCAAAAGCTCGGGGAAAACACATCCCAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCC-TCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280947" ref_strand="+" ref_description="SGN-E280947 [cLER-7-E23]">
      <seq>ttttatttattaaaatcaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccaccttcctctggtagcccatggtatggacctgaccgtgttaagtacttgggcccattctctggtgaatcaccacgctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacatttgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgtttaccccgagcttttggcacgtaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43738" stop="42771"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43071" g_length="368"/>
          <reference_exon_boundary r_type="cDNA" r_start="23" r_stop="390" r_length="368" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280947" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>368</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280947" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43071"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCACCTTCCTCTGGTAGCCCATGGTATGGACCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCACGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTTGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTACCCCGAGCTTTTGGCACGTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288105" ref_strand="+" ref_description="SGN-E288105 [cLES-7-K3]">
      <seq>tacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattaccgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtggtttccccgagcttttggcacgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43640" stop="42772"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43340" g_stop="43072" g_length="269"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="269" r_length="269" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288105" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>269</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288105" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43340" e_stop="43072"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTA</genome_strand>
        <mrna_strand>TACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACCGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGGTTTCCCCGAGCTTTTGGCACGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367326" ref_strand="+" ref_description="SGN-E367326 [cLPT-5-P24]">
      <seq>aaacacaattcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaagcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgagttttccctgagcttttggcccgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42773"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43444" g_stop="43073" g_length="372"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="401" r_length="372" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E367326" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>372</cumulative_length_of_scored_exons>
        <coverage percentage="0.928" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E367326" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43444" e_stop="43073"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>TAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAAGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGAGTTTTCCCTGAGCTTTTGGCCCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343481" ref_strand="+" ref_description="SGN-E343481 [cTOF-19-G21]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggagggtattcattgcagatgggccatgcttggtgctcttggaatgtgtttccccgagcttttggcacgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42773"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43073" g_length="366"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="399" r_length="366" r_score="0.951"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343481" ref_strand="+">
        <total_alignment_score>0.951</total_alignment_score>
        <cumulative_length_of_scored_exons>366</cumulative_length_of_scored_exons>
        <coverage percentage="0.917" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343481" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43073"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGG-ATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGGTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAATGTG-TTTCCCCGAGCTTTTGGCACGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315006" ref_strand="+" ref_description="SGN-E315006 [cTOB-4-A20]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcacatgggccatgcttggggctcttggatgtgttttccccgagcttttggcacgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43768" stop="42773"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43073" g_length="366"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="401" r_length="366" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E315006" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>366</cumulative_length_of_scored_exons>
        <coverage percentage="0.913" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315006" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43073"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGGGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283570" ref_strand="+" ref_description="SGN-E283570 [cLER-12-P24]">
      <seq>aaacacaaatcatttctttttatttattaaaagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaatactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggagattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggcgctcttggatgtgttttcccccagcttttggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43778" stop="42776"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43438" g_stop="43076" g_length="363"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="402" r_length="363" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E283570" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>363</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283570" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43438" e_stop="43076"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCA</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAATACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGAGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGCGCTCTTGGATGTGTTTTCCCCCAGCTTTTGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200146" ref_strand="+" ref_description="SGN-E200146 [cLEB-7-L2]">
      <seq>gcacgaggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcaaatgggccatgcttggtgctcttggatgtgttttccccgagcttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43742" stop="42779"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43443" g_stop="43079" g_length="365"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="364" r_length="364" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E200146" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>365</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E200146" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43443" e_stop="43079"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTG</genome_strand>
        <mrna_strand>GCACGA-GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAAATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320634" ref_strand="+" ref_description="SGN-E320634 [cTOB-27-E1]">
      <seq>tgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatgggcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43664" stop="42787"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43364" g_stop="43087" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="278" r_length="278" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E320634" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>278</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320634" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43364" e_stop="43087"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCG</genome_strand>
        <mrna_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGGCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730266" ref_strand="+" ref_description="SGN-E730266 [LA23CD08]">
      <seq>ctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggaatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggagattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcacatgggccatgcttggtgctcttggatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43719" stop="42798"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43419" g_stop="43098" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="322" r_length="322" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E730266" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730266" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43419" e_stop="43098"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATG</genome_strand>
        <mrna_strand>CTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGAATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGAGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGTGCTCTTGGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288106" ref_strand="+" ref_description="SGN-E288106 [cLES-7-K5]">
      <seq>aactgctgccaagcccaatccagcttcctctggtaacccatggtatggggctgaccgtgttaagtacttgagcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactggtgggctctcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcatatgggccatgcttggtgctcttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43627" stop="42799"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43328" g_stop="43099" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="230" r_length="230" r_score="0.948"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E288106" ref_strand="+">
        <total_alignment_score>0.948</total_alignment_score>
        <cumulative_length_of_scored_exons>230</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288106" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43328" e_stop="43099"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAT</genome_strand>
        <mrna_strand>AACTGCTGCCAAGCCCAATCCAGCTTCCTCTGGTAACCCATGGTATGGGGCTGACCGTGTTAAGTACTTGAGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGGTGGGCTCTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCATATGGGCCATGCTTGGTGCTCTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223668" ref_strand="+" ref_description="SGN-E223668 [cLEL-14-J22](-)">
      <seq>gagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42805" stop="43768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43105" g_stop="43467" g_length="363"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="363" r_length="363" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E223668" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>363</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E223668" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43105" e_stop="43467"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGAACTCTTAGAATGTACAAAAAAAGA</genome_strand>
        <mrna_strand>GAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATAAACTCTTAGAATGTACAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279177" ref_strand="+" ref_description="SGN-E279177 [cLEL-4-D16](-)">
      <seq>tggcccatctgcaatgaataacctcccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagcctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42817" stop="43742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43117" g_stop="43443" g_length="327"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="327" r_length="327" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279177" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>327</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279177" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43117" e_stop="43443"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCCCATCTGCAATGAATAACCT-CCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGA</genome_strand>
        <mrna_strand>TGGCCCATCTGCAATGAATAACCTCCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCC-TCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296973" ref_strand="+" ref_description="SGN-E296973 [cLET-26-D24]">
      <seq>tcataatggctgcttgtactatggctctttcctcctctactttcgccggtcaggcggtgaaactctcaccatcttcttctgaaatcattggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgagttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaataaccgggagttggaggttattcattgcacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43743" stop="42823"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43443" g_stop="43123" g_length="321"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="321" r_length="321" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E296973" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>321</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296973" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43443" e_stop="43123"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGAT</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTGTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTCAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCATTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGAGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAATAACCGGGAGTTGGAGGTTATTCATTGCACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342476" ref_strand="+" ref_description="SGN-E342476 [cTOF-8-D7]">
      <seq>acaattcatttctttttatttattaaaattaaacctggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgggaagtggaagttattcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43737" stop="42830"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43437" g_stop="43130" g_length="308"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="342" r_length="307" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E342476" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>308</cumulative_length_of_scored_exons>
        <coverage percentage="0.901" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342476" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43437" e_stop="43130"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCAT</genome_strand>
        <mrna_strand>TGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGC-CCCAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGGGAAGTGGAAGTTATTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E237304" ref_strand="+" ref_description="SGN-E237304 [cLEL-7-J24](-)">
      <seq>aactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="42843" stop="43770"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43143" g_stop="43471" g_length="329"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="329" r_length="329" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E237304" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>329</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E237304" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43143" e_stop="43471"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGAACTCTTAGAATGTACAAAAAAAGAAGAG</genome_strand>
        <mrna_strand>AACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATAAACTCTTAGAATGTACAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279709" ref_strand="+" ref_description="SGN-E279709 [cLER-5-L7]">
      <seq>accttcgccggaaagacggagaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43705" stop="42859"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43405" g_stop="43159" g_length="247"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="247" r_length="247" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279709" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>247</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279709" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43405" e_stop="43159"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCG</genome_strand>
        <mrna_strand>ACCTTCGCCGGAAAGACGGAGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324546" ref_strand="+" ref_description="SGN-E324546 [cTOC-9-D1]">
      <seq>gaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaacactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattactgatgggacactgctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="43685" stop="42883"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="43385" g_stop="43183" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="203" r_length="203" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E324546" ref_strand="+">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>203</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="43385" e_stop="43183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGC</genome_strand>
        <mrna_strand>GAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAACACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACTGATGGGACACTGCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E724205" ref_strand="+" ref_description="SGN-E724205 [FC23BF01]">
      <seq>attgataacaacaaccaccataaagaattcatttctttttatttattaaaattaaaccctggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45079" stop="46437"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45375" g_stop="46137" g_length="763"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="762" r_length="762" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E724205" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>763</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E724205" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45375" e_stop="46137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>ATTGATAACAACAACCACCATAA-AGAATTCATTTCTTTTTATTTATTAAAATTAAACCCTGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721997" ref_strand="+" ref_description="SGN-E721997 [FC15DF05]">
      <seq>gataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45079" stop="46553"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45378" g_stop="46253" g_length="876"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="876" r_length="876" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E721997" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>876</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E721997" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45378" e_stop="46253"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTC</genome_strand>
        <mrna_strand>GATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E721776" ref_strand="+" ref_description="SGN-E721776 [FC15BB04]">
      <seq>gggcgattggcggccaatcggccgaattgataacacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45079" stop="46523"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45379" g_stop="46223" g_length="845"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="873" r_length="844" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E721776" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>845</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E721776" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45379" e_stop="46223"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>ATAAC-ACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E720873" ref_strand="+" ref_description="SGN-E720873 [FC12AE02]">
      <seq>cggccaaatcggccgaattgataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45079" stop="46483"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45379" g_stop="46183" g_length="805"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="825" r_length="805" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E720873" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>805</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E720873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45379" e_stop="46183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAC</genome_strand>
        <mrna_strand>ATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725107" ref_strand="+" ref_description="SGN-E725107 [FC26AD04]">
      <seq>cggccaaatcggccgaattgataacaacaaccatcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45079" stop="46443"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45379" g_stop="46143" g_length="765"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="785" r_length="765" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725107" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>765</cumulative_length_of_scored_exons>
        <coverage percentage="0.975" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725107" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45379" e_stop="46143"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGG</genome_strand>
        <mrna_strand>ATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279163" ref_strand="+" ref_description="SGN-E279163 [cLEL-4-P3](-)">
      <seq>agcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttccccggagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccgtctttccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaataaataaaaagaaatgaattgtgttttctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46059" stop="45094"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45759" g_stop="45386" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="373" r_length="373" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279163" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>374</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279163" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45759" e_stop="45386"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGTGTTTTGATGGTTG</genome_strand>
        <mrna_strand>AGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGGGCTTCCCCGGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGTGTTTT-CTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723349" ref_strand="+" ref_description="SGN-E723349 [FC20AH11]">
      <seq>gggcgattggcggcaaatcggccgaattccatggggatccgatcaatacaaccatcaaaacacaattcatttctttttatttattcaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45074" stop="46441"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45387" g_stop="46141" g_length="755"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="804" r_length="755" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E723349" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="0.939" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E723349" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45387" e_stop="46141"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</genome_strand>
        <mrna_strand>AACCATCAAAACACAATTCATTTCTTTTTATTTATTCAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726982" ref_strand="+" ref_description="SGN-E726982 [LA13BE08]">
      <seq>ccgttaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctggggctttgccacaaactttgttcccggaaagtgagtgcaacaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46548"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45389" g_stop="46248" g_length="860"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="859" r_length="859" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726982" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>860</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726982" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45389" e_stop="46248"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAAC</genome_strand>
        <mrna_strand>CCGT-TAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740080" ref_strand="+" ref_description="SGN-E740080 [LC20AB03]">
      <seq>atcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagtttttttaaagcatctgggttatggggtcagtacaagattatttgtaaattggttgggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45091" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45391" g_stop="46407" g_length="1017"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1018" r_length="1018" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1019" polyA_stop="1041"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E740080" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>1017</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E740080" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45391" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAG-TTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTA-TTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>ATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTTAAAGCA-TCTGGGTTATGGGGTCAGTACAAGATTATTTGTAAATTGGTTGGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725969" ref_strand="+" ref_description="SGN-E725969 [LA08DE12]">
      <seq>atcaaaacacaattcatttctttttatttattaaaattagaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagnttggttcatgcacaaagcattttggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45091" stop="46216"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45391" g_stop="45916" g_length="526"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="527" r_length="527" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725969" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725969" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45391" e_stop="45916"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTA-AACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCT</genome_strand>
        <mrna_strand>ATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAGAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGNTTGGTTCATGCACAAAGCATTTTGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735549" ref_strand="+" ref_description="SGN-E735549 [LC02AD08]">
      <seq>tcaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgggaagtgagtgcaacaaactgttctcccattagtgtgagattatgagtttttagctttgtgagagatgaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46602"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="46302" g_length="911"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="898" r_length="898" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735549" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>911</cumulative_length_of_scored_exons>
        <coverage percentage="1.014" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735549" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="46302"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCT</genome_strand>
        <mrna_strand>TCAAA-CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTA--T---T--TGA-----CTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGGAAGTGAGTGCAACAAACTGTTCTCCCATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727332" ref_strand="+" ref_description="SGN-E727332 [LA14BF04]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46561"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="46261" g_length="870"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="870" r_length="870" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727332" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>870</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727332" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="46261"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTA</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731543" ref_strand="+" ref_description="SGN-E731543 [LA27BH01]">
      <seq>aggaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgaaccagttaacaacaacgcctgggcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46509"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="46209" g_length="818"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="818" r_length="818" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731543" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>818</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="46209"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTT</genome_strand>
        <mrna_strand>AGGAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAACCAGTTAACAACAACGCCTGGGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344973" ref_strand="+" ref_description="SGN-E344973 [cTOF-22-K8]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46424"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="46124" g_length="733"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="734" r_length="734" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344973" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344973" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="46124"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E325835" ref_strand="+" ref_description="SGN-E325835 [cTOC-12-H1]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaagttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagttaggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgcgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46312"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="46012" g_length="621"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="621" r_length="621" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E325835" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E325835" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="46012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAAGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTAGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGCGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323636" ref_strand="+" ref_description="SGN-E323636 [cTOC-2-N8]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46262"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="45962" g_length="571"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="571" r_length="571" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E323636" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>571</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E323636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="45962"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACC</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735798" ref_strand="+" ref_description="SGN-E735798 [LC03AD08]">
      <seq>tcaaaacacaatccatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggcgaaactgtatggttccaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46246"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="45946" g_length="555"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735798" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="1.022" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="45946"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>TCAAAACACAATCCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTA--T---T--TGA-----CTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAACTGTATGGTTCCAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341533" ref_strand="+" ref_description="SGN-E341533 [cTOE-23-E6]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="45924" g_length="533"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="533" r_length="533" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E341533" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>533</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E341533" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725465" ref_strand="+" ref_description="SGN-E725465 [LA03CC09]">
      <seq>tcaaaacacaattcacttctttttacttataaaagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccaacttcttctgaaatcagtggaaatgggagaacttacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttcccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttagcgagggcgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46164"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="45864" g_length="473"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="473" r_length="473" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725465" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="45864"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAA-TTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTT-CCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGG</genome_strand>
        <mrna_strand>TCAAAACACAATTCACTTCTTTTTACTTA-TAAAAGTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCAACTTCTTCTGAAATCAGTGGAAATGGGAGAACTTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTT-AGCGAGGGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725932" ref_strand="+" ref_description="SGN-E725932 [LA08DB05]">
      <seq>tcaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgcgagttggaggttattcattgcagatgggccatgcttggtgctctaggatgtgttttcccagagcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45092" stop="46091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45392" g_stop="45791" g_length="400"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="400" r_length="400" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725932" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>400</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45392" e_stop="45791"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTT</genome_strand>
        <mrna_strand>TCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGCGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTAGGATGTGTTTTCCCAGAGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E703282" ref_strand="+" ref_description="SGN-E703282 [FA21AC11]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgcacaaactttgttcccggaaagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46536"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="46233" g_length="841"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="840" r_length="840" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E703282" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>841</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703282" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTG-CACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731965" ref_strand="+" ref_description="SGN-E731965 [LA28CG10]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctatcttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgngccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46527"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="46227" g_length="835"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="835" r_length="835" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731965" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>835</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731965" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="46227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTATCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGNGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345979" ref_strand="+" ref_description="SGN-E345979 [cTOF-24-E3]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="46041" g_length="649"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="649" r_length="649" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345979" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>649</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345979" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293975" ref_strand="+" ref_description="SGN-E293975 [cLET-13-J7]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46273"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45973" g_length="581"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="581" r_length="581" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293975" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>581</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293975" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45973"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295926" ref_strand="+" ref_description="SGN-E295926 [cLET-27-F15]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggagttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46269"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45969" g_length="577"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="577" r_length="577" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295926" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>577</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295926" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGC</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGAGTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288334" ref_strand="+" ref_description="SGN-E288334 [cLES-16-L12]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45947" g_length="555"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="555" r_length="555" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288334" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288334" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300602" ref_strand="+" ref_description="SGN-E300602 [cLET-45-O4]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45947" g_length="555"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="555" r_length="555" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E300602" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E300602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291919" ref_strand="+" ref_description="SGN-E291919 [cLET-7-E17]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccgtaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacanatgnaangnggnnnnaaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46242"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45942" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="561" r_length="561" r_score="0.958"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291919" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>550</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291919" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45942"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACA-ATG--A---GG-----AAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGTAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACANATGNAANGNGGNNNNAAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290870" ref_strand="+" ref_description="SGN-E290870 [cLET-10-F21]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46240"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45940" g_length="548"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="548" r_length="548" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E290870" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45940"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTG</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294143" ref_strand="+" ref_description="SGN-E294143 [cLET-13-N11]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46225"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45925" g_length="533"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="533" r_length="533" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294143" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>533</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCT</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319589" ref_strand="+" ref_description="SGN-E319589 [cTOB-15-J4]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45924" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="532" r_length="532" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319589" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319589" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319467" ref_strand="+" ref_description="SGN-E319467 [cTOB-15-A9]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46217"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45917" g_length="525"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="525" r_length="525" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319467" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319467" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297164" ref_strand="+" ref_description="SGN-E297164 [cLET-29-C14]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46208"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45908" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="516" r_length="516" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297164" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297164" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45908"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294821" ref_strand="+" ref_description="SGN-E294821 [cLET-17-H16]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46182"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45882" g_length="490"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="490" r_length="490" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294821" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>490</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294821" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45882"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319516" ref_strand="+" ref_description="SGN-E319516 [cTOB-15-A10]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46181"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45881" g_length="489"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="489" r_length="489" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319516" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>489</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319516" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45881"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300629" ref_strand="+" ref_description="SGN-E300629 [cLET-45-H23]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggccctgaccgtgttaagtacttgggcccattctctggtgaatcaccacgctatttgactggcgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttctccccgagcttttggcacgtaacggtgttaagtttgctgaagctgtatggatcaaagctggatctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46145"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45845" g_length="453"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E300629" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E300629" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45845"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTC</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCACGCTATTTGACTGGCGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTCTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGCTGAAGCTGTATGGATCAAAGCTGGATCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296632" ref_strand="+" ref_description="SGN-E296632 [cLET-39-P18]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="46136"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45836" g_length="444"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="444" r_length="444" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296632" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>444</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296632" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45836"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E298815" ref_strand="+" ref_description="SGN-E298815 [cLET-44-M16]">
      <seq>caaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaaaccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45093" stop="45931"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45393" g_stop="45631" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E298815" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>239</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E298815" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45393" e_stop="45631"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAA</genome_strand>
        <mrna_strand>CAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAACCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727557" ref_strand="+" ref_description="SGN-E727557 [LA15AB11]">
      <seq>cgatcacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45096" stop="46555"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46255" g_length="862"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="862" r_length="862" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727557" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>862</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727557" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46255"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTC</genome_strand>
        <mrna_strand>CGATCACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726438" ref_strand="+" ref_description="SGN-E726438 [LA11DC04]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgaattgaaggtgaaggaaattaagaatggacgtttagctatgttttctatgtttggattctttgttcaagctattgttactggaaagggtccaattgagaacctctctgaccacattaacgaccctgtggctaacaacgctttgggcttacgccacaaactttgtacccggaaaagtgaaagtaatttgggctaattaatgaaagttttatgcttgtgaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45094" stop="46477"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46233" g_length="840"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="841" r_length="841" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726438" ref_strand="+">
        <total_alignment_score>0.952</total_alignment_score>
        <cumulative_length_of_scored_exons>840</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726438" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCT-GGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAATTGAAGGTGAAGGAAATTAAGAATGGACGTTTAGCTATGTTTTCTATGTTTGGATTCTTTGTTCAAGCTATTGTTACTGGAAAGGGTCCAATTGAGAACCTCTCTGACCACATTAACGACCCTGTGGCTAACAACGCTTTGGGCTTACGCCACAAACTTTGTACCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340778" ref_strand="+" ref_description="SGN-E340778 [cTOF-5-E24]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccactntaccctggtgtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45094" stop="46431"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46131" g_length="738"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="738" r_length="738" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340778" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46131"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGC</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTNTACCCTGGT-GTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344452" ref_strand="+" ref_description="SGN-E344452 [cTOF-14-I24]">
      <seq>aaaacacaattcatttctttttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46418"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46118" g_length="725"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="721" r_length="721" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344452" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>725</cumulative_length_of_scored_exons>
        <coverage percentage="1.006" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344452" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46118"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGAT</genome_strand>
        <mrna_strand>AAAACACAATTCATTTC---TT-TTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342473" ref_strand="+" ref_description="SGN-E342473 [cTOF-8-B21]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttacccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaagggaatcaagaatggtagacttgctatgttctcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45094" stop="46409"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46109" g_length="716"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="718" r_length="718" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342473" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>716</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342473" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46109"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTA-CCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCA</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGGAATCAAGAATGGTAGACTTGCTATGTTCTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328503" ref_strand="+" ref_description="SGN-E328503 [cTOC-23-K15]">
      <seq>gtgccgaattcggcacgaggaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgttgatccacttttacctggtggtagctttgacccattgggccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45088" stop="46338"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="46038" g_length="645"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="665" r_length="645" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E328503" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>645</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328503" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="46038"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGC</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGTTGATCCACTTTTACCTGGTGGTAGCTTTGACCCATTGGGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322397" ref_strand="+" ref_description="SGN-E322397 [cTOB-24-H4]">
      <seq>aaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45094" stop="46283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="45983" g_length="590"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="590" r_length="590" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E322397" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>590</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E322397" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="45983"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326121" ref_strand="+" ref_description="SGN-E326121 [cTOC-16-F18]">
      <seq>gtgccgaattcggcacgaggaaaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45088" stop="46091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45394" g_stop="45791" g_length="398"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="418" r_length="398" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E326121" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>398</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E326121" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45394" e_stop="45791"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTT</genome_strand>
        <mrna_strand>AAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340886" ref_strand="+" ref_description="SGN-E340886 [cTOF-5-C21]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46422"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46122" g_length="728"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="728" r_length="728" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340886" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>728</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340886" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46122"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTT</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327646" ref_strand="+" ref_description="SGN-E327646 [cTOC-20-F6]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaaacccagangcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46066" g_length="672"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="671" r_length="671" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E327646" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>672</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E327646" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAA-ACCCAGANGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318193" ref_strand="+" ref_description="SGN-E318193 [cTOA-29-H19]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgangttgttgatccactttaccctggtggtagctttgacccatgggccttgctgaagaaccagagcttttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46360"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46060" g_length="666"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="664" r_length="664" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318193" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>666</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318193" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46060"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCT</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGANGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCA-TGGGCCTTGCTGAAGAACCAGA-GCTTTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326660" ref_strand="+" ref_description="SGN-E326660 [cTOC-17-O4]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgttgatccactttaccctggtggtagctttgacccattggccttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46040" g_length="646"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="645" r_length="645" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E326660" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>646</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E326660" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATT-GGCCTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E334587" ref_strand="+" ref_description="SGN-E334587 [cTOD-23-M11]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgntgatccactttaccctggtggtagctttgacccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46328"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46028" g_length="634"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="635" r_length="635" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E334587" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>634</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E334587" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46028"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGG-CCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCAT</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGAACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345211" ref_strand="+" ref_description="SGN-E345211 [cTOF-13-M9]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46317"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="46017" g_length="623"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="623" r_length="623" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345211" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>623</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345211" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="46017"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320366" ref_strand="+" ref_description="SGN-E320366 [cTOB-22-A20]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctangtttgttcatgcancaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46281"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45981" g_length="587"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="587" r_length="587" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E320366" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>587</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45981"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTANGTTTGTTCATGCANCAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E334566" ref_strand="+" ref_description="SGN-E334566 [cTOD-23-C13]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggggaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46271"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45971" g_length="577"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="577" r_length="577" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E334566" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>577</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E334566" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45971"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGGAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E310471" ref_strand="+" ref_description="SGN-E310471 [cTOA-9-O15]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatatgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45948" g_length="554"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="554" r_length="554" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E310471" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>554</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E310471" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATATGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E333604" ref_strand="+" ref_description="SGN-E333604 [cTOD-22-B5]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagntgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45945" g_length="551"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="551" r_length="551" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E333604" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E333604" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGNTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367376" ref_strand="+" ref_description="SGN-E367376 [cLPT-7-I4]">
      <seq>aaacacaatttatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggagttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46174"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45874" g_length="480"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="476" r_length="476" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E367376" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>480</cumulative_length_of_scored_exons>
        <coverage percentage="1.008" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E367376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45874"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</genome_strand>
        <mrna_strand>AAACACAATTTATTTCTTTT----TATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGAGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323991" ref_strand="+" ref_description="SGN-E323991 [cTOC-3-H23]">
      <seq>aaacacaattcatttctgtttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctattagactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45803" g_length="409"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="409" r_length="409" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E323991" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>409</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E323991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45803"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTGTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTAGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E367326" ref_strand="+" ref_description="SGN-E367326 [cLPT-5-P24]">
      <seq>aaacacaattcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaagcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgagttttccctgagcttttggcccgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45799" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="401" r_length="401" r_score="0.921"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E367326" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.010" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E367326" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>AAACACAATTCATTTCT---T-TTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAAGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGAGTTTTCCCTGAGCTTTTGGCCCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283570" ref_strand="+" ref_description="SGN-E283570 [cLER-12-P24]">
      <seq>aaacacaaatcatttctttttatttattaaaagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaatactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggagattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggcgctcttggatgtgttttcccccagcttttggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46096"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45796" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="402" r_length="402" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E283570" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>402</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283570" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45796"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCA</genome_strand>
        <mrna_strand>AAACACAAATCATTTCTTTTTATTTATTAAAAGTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAATACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGAGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGCGCTCTTGGATGTGTTTTCCCCCAGCTTTTGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E312799" ref_strand="+" ref_description="SGN-E312799 [cTOA-8-L24]">
      <seq>aaacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagcctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45095" stop="46044"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45395" g_stop="45744" g_length="350"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E312799" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>350</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E312799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45395" e_stop="45744"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAG-CTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTG</genome_strand>
        <mrna_strand>AAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738087" ref_strand="+" ref_description="SGN-E738087 [LC12BC10]">
      <seq>aacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45096" stop="46573"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="46273" g_length="878"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="878" r_length="878" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E738087" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>878</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E738087" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="46273"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTAT</genome_strand>
        <mrna_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731374" ref_strand="+" ref_description="SGN-E731374 [LA26DG05]">
      <seq>aacacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45096" stop="46553"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="46253" g_length="858"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="859" r_length="859" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731374" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>858</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731374" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="46253"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGG-AAAGTGAGTGCAACAAACTCTTC</genome_strand>
        <mrna_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAAGTGAGTGCAACAAACTGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730793" ref_strand="+" ref_description="SGN-E730793 [LA25AH05]">
      <seq>aacacaattcatcctctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaaacacaacgcctgggcttttgccacaaaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45109" stop="46522"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="46222" g_length="827"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="829" r_length="829" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730793" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>827</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730793" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="46222"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCAT-TTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCAC-AAACTTT</genome_strand>
        <mrna_strand>AACACAATTCATCCTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAAACACAACGCCTGGGCTTTTGCCACAAAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726953" ref_strand="+" ref_description="SGN-E726953 [LA13BC02]">
      <seq>cgctcaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46504"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="46204" g_length="809"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="809" r_length="809" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726953" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>809</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726953" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="46204"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGG</genome_strand>
        <mrna_strand>CGCTCAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697940" ref_strand="+" ref_description="SGN-E697940 [FA04DA12]">
      <seq>cgttcaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45100" stop="46437"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="46137" g_length="742"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="742" r_length="742" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E697940" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>742</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E697940" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="46137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>CGTTCAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E365670" ref_strand="+" ref_description="SGN-E365670 [cLPT-8-E1]">
      <seq>aggacaattcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45105" stop="46186"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="45886" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="487" r_length="487" r_score="0.929"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E365670" ref_strand="+">
        <total_alignment_score>0.929</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.008" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E365670" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="45886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>AGGACAATTCATTTC---TT-TTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296866" ref_strand="+" ref_description="SGN-E296866 [cLET-26-N10]">
      <seq>aacacactgcatttctttttatttattaaaattaaaccatggctgccttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45096" stop="45956"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45396" g_stop="45656" g_length="261"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="262" r_length="262" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296866" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>261</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296866" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45396" e_stop="45656"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTG-CTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGT</genome_strand>
        <mrna_strand>AACACACTGCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E702011" ref_strand="+" ref_description="SGN-E702011 [FA17CC05]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46590"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="46290" g_length="894"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="894" r_length="894" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E702011" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>894</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E702011" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="46290"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTG</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726868" ref_strand="+" ref_description="SGN-E726868 [LA13AC05]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccccaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="46254" g_length="858"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="858" r_length="858" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726868" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>858</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726868" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="46254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCT</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCCCAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E700580" ref_strand="+" ref_description="SGN-E700580 [FA13CB07]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgaaagtgagtgcaacaaactgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46553"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="46253" g_length="857"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="856" r_length="856" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E700580" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>857</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E700580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="46253"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTC</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCC-GAAAGTGAGTGCAACAAACTGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727564" ref_strand="+" ref_description="SGN-E727564 [LA15AC06]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggttttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttccccggaagtgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46538"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="46233" g_length="837"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="837" r_length="837" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727564" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>837</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGTTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297993" ref_strand="+" ref_description="SGN-E297993 [cLET-38-J10]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46285"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="45985" g_length="589"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="589" r_length="589" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297993" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>589</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297993" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="45985"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGT</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294551" ref_strand="+" ref_description="SGN-E294551 [cLET-22-K22]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="45924" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294551" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294551" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279944" ref_strand="+" ref_description="SGN-E279944 [cLER-8-D11]">
      <seq>acacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45097" stop="46018"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45397" g_stop="45718" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="322" r_length="322" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279944" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279944" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45397" e_stop="45718"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAG</genome_strand>
        <mrna_strand>ACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740914" ref_strand="+" ref_description="SGN-E740914 [LC23BH02]">
      <seq>cgctttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgncacaaactgttctccaattagtgtgagattatgagtttttag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46583"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46283" g_length="886"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="885" r_length="885" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E740914" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>886</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E740914" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46283"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAG</genome_strand>
        <mrna_strand>CGCT-TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGNCACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726770" ref_strand="+" ref_description="SGN-E726770 [LA12DB01]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttccgggaaagtgagtgcaacaaactgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46551"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46251" g_length="854"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="854" r_length="854" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726770" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>854</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726770" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46251"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCT</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCGGGAAAGTGAGTGCAACAAACTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730185" ref_strand="+" ref_description="SGN-E730185 [LA23BD01]">
      <seq>cactattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46517"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46217" g_length="820"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="820" r_length="820" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730185" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>820</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730185" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46217"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAA</genome_strand>
        <mrna_strand>CACTATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705814" ref_strand="+" ref_description="SGN-E705814 [FA28AH04]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccactttgctgacccagttaacaacaacgcctgggccttttgccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46515"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46215" g_length="818"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="819" r_length="819" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E705814" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>818</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E705814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46215"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGG-CTTTTGCCAC</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACTTTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTTGCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726298" ref_strand="+" ref_description="SGN-E726298 [LA11BF11]">
      <seq>cgatattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45102" stop="46487"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46187" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="790" r_length="790" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726298" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726298" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46187"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAG</genome_strand>
        <mrna_strand>CGATATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731636" ref_strand="+" ref_description="SGN-E731636 [LA27CH09]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46482"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46182" g_length="785"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="785" r_length="785" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731636" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>785</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46182"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGA</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731718" ref_strand="+" ref_description="SGN-E731718 [LA27DH09]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46445"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46145" g_length="748"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="748" r_length="748" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731718" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>748</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731718" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAA</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344933" ref_strand="+" ref_description="SGN-E344933 [cTOF-21-N12]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgntgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaagagatcaaaaatggtagacttgctatgttctccatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46413"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46113" g_length="716"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="718" r_length="718" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344933" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>716</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46113"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTT</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGNTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGAGATCAAAAATGGTAGACTTGCTATGTTCTCCATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339020" ref_strand="+" ref_description="SGN-E339020 [cTOF-6-B3]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggggagggntgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46410"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46110" g_length="713"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="715" r_length="715" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339020" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>713</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339020" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46110"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGGGAGGGNTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728838" ref_strand="+" ref_description="SGN-E728838 [LA19AE03]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccacaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46400"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="45575" g_length="178"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="178" r_length="178" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45576" i_stop="45662" i_length="87">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="45663" g_stop="46100" g_length="438"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="616" r_length="438" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728838" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>616</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728838" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="45575"/>
          <exon e_start="45663" e_stop="46100"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTA</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTG.......................................................................................GTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCACAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345804" ref_strand="+" ref_description="SGN-E345804 [cTOF-18-J13]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttaccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46066" g_length="669"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="671" r_length="671" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345804" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>669</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345804" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345242" ref_strand="+" ref_description="SGN-E345242 [cTOF-13-K12]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="46041" g_length="644"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="644" r_length="644" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345242" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>644</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729360" ref_strand="+" ref_description="SGN-E729360 [LA20DC11]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggagggcctctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46282"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="45982" g_length="585"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="585" r_length="585" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729360" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>585</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729360" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="45982"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTT</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGAGGGCCTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725977" ref_strand="+" ref_description="SGN-E725977 [LA08DF08]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46207"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="45907" g_length="510"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="510" r_length="510" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725977" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>510</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725977" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="45907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725495" ref_strand="+" ref_description="SGN-E725495 [LA03DC03]">
      <seq>cacaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggagaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatggcacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggctattcattgcagatggcccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttcagtttggtgacgctgtatggttcatagctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45098" stop="46139"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45398" g_stop="45839" g_length="442"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="442" r_length="442" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725495" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>442</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725495" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45398" e_stop="45839"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTG</genome_strand>
        <mrna_strand>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGAGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGCACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGCTATTCATTGCAGATGGCCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTCAGTTTGGTGACGCTGTATGGTTCATAGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347883" ref_strand="-" ref_description="SGN-E347883 [cTOF-31-A6]">
      <seq>ggtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctaccattcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgatttcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccttctatccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaataaataaaaagaagtgaattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46441" stop="45099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46141" g_stop="45636" g_length="506"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45635" i_stop="45560" i_length="76">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="45559" g_stop="45399" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="508" r_stop="668" r_length="161" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347883" ref_strand="-">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>667</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347883" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46141" e_stop="45636"/>
          <exon e_start="45559" e_stop="45399"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACG-GTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGT</genome_strand>
        <mrna_strand>GGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTG............................................................................GGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCTTCTATCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAGTGAATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339896" ref_strand="+" ref_description="SGN-E339896 [cTOF-3-D15]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46441"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="46141" g_length="743"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="743" r_length="743" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339896" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>743</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339896" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="46141"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344575" ref_strand="+" ref_description="SGN-E344575 [cTOF-14-I21]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46437"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="46137" g_length="739"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="739" r_length="739" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344575" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>739</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="46137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E359489" ref_strand="+" ref_description="SGN-E359489 [cLHT-31-N9]">
      <seq>acaattcatttgtttttattaattattaaaccatggctgcttctacaatggctctatcttcctctacttttgccggtaaagcggtaaaactctcaccatcttcttctgaaatcagtggaaatggaagaatcaccatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccccggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcacgtaacggtgttaaatttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagctgttgaaggttaccgtgttgctggtgggcctcttggtgaggttgttgatccactttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45105" stop="46306"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="46006" g_length="608"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="605" r_length="605" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E359489" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>608</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E359489" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="46006"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTAC</genome_strand>
        <mrna_strand>ACAATTCATTTGTTTTTATTAATT---ATTAAACCATGGCTGCTTCTACAATGGCTCTATCTTCCTCTACTTTTGCCGGTAAAGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGAAGAATCACCATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCCGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAATTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAAGGTTACCGTGTTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320957" ref_strand="+" ref_description="SGN-E320957 [cTOB-13-I20]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttggtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46286"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45986" g_length="588"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="588" r_length="588" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E320957" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45986"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342316" ref_strand="+" ref_description="SGN-E342316 [cTOF-8-B15]">
      <seq>acaattcacttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45983" g_length="585"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="585" r_length="585" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342316" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>585</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342316" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45983"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>ACAATTCACTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340337" ref_strand="+" ref_description="SGN-E340337 [cTOF-2-M18]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45983" g_length="585"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="585" r_length="585" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340337" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>585</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340337" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45983"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348493" ref_strand="+" ref_description="SGN-E348493 [cTOF-30-M12]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46281"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45981" g_length="583"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="583" r_length="583" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348493" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>583</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45981"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297904" ref_strand="+" ref_description="SGN-E297904 [cLET-38-I24]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45949" g_length="551"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="551" r_length="551" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297904" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297904" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277626" ref_strand="+" ref_description="SGN-E277626 [cLER-6-K1]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45947" g_length="549"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="549" r_length="549" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E277626" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>549</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E277626" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320758" ref_strand="+" ref_description="SGN-E320758 [cTOB-27-P6]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaacctagtttngttcatgcacaaagcatttttgctatttgggctttgcaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45945" g_length="547"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="547" r_length="547" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E320758" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>547</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320758" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAAACCTAGTTTNGTTCATGCACAAAGCATTTTTGCTATTTGGGCTTTGCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319622" ref_strand="+" ref_description="SGN-E319622 [cTOB-12-G9]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46244"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45944" g_length="546"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="546" r_length="546" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319622" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>546</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319622" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45944"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340280" ref_strand="+" ref_description="SGN-E340280 [cTOF-2-C13]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggannnnaaactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacggaacggtggtaagtttggtgaagctgtatgggtcaaagctggatctcaannnttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46217"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45917" g_length="519"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="519" r_length="519" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340280" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>519</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340280" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGANNNNAAACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGGAACGGTGGTAAGTTTGGTGAAGCTGTATGGGTCAAAGCTGGATCTCAANNNTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278685" ref_strand="+" ref_description="SGN-E278685 [cLER-10-J12]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46212"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45912" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E278685" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278685" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294890" ref_strand="+" ref_description="SGN-E294890 [cLET-17-G23](-)">
      <seq>ggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccgtctttccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaataaataaaaagaaatgaattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46184" stop="45099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45884" g_stop="45399" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="486" r_length="486" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E294890" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294890" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45884" e_stop="45399"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGT</genome_strand>
        <mrna_strand>GGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294889" ref_strand="+" ref_description="SGN-E294889 [cLET-17-G23]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46184"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45884" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="486" r_length="486" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294889" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294889" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45884"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACC</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725883" ref_strand="+" ref_description="SGN-E725883 [LA08CE06]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatggttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45879" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725883" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725883" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGGTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294213" ref_strand="+" ref_description="SGN-E294213 [cLET-14-E1]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggctcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45879" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294213" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294213" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGCTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295280" ref_strand="+" ref_description="SGN-E295280 [cLET-20-J11]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46157"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45857" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="459" r_length="459" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295280" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295280" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45857"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCG</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287556" ref_strand="+" ref_description="SGN-E287556 [cLES-9-N1]">
      <seq>acaattcatttctttttatttattaaaactaaaccatggctgcttgtacaatggctctttactactgtaccttcgccggaaagaccgcgaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccacgccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggggaatcaccacgctatttgactggggagttccctggtgattacggatgggacactgttgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggagggtattcattgcatatgggccatgcttggggctcttggatgagttttccccgagcttttggcacgtaacggtggtaagattggagaacctgtatggttcaaagctggatctcaaatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46152"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45852" g_length="454"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="454" r_length="454" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E287556" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>454</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E287556" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45852"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAACTAAACCATGGCTGCTTGTACAATGGCTCTTTACTACTGTACCTTCGCCGGAAAGACCGCGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCACGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGGGAATCACCACGCTATTTGACTGGGGAGTTCCCTGGTGATTACGGATGGGACACTGTTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGGTATTCATTGCATATGGGCCATGCTTGGGGCTCTTGGATGAGTTTTCCCCGAGCTTTTGGCACGTAACGGTGGTAAGATTGGAGAACCTGTATGGTTCAAAGCTGGATCTCAAATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315006" ref_strand="+" ref_description="SGN-E315006 [cTOB-4-A20]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcacatgggccatgcttggggctcttggatgtgttttccccgagcttttggcacgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45799" g_length="401"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="401" r_length="401" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E315006" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E315006" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGGGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342476" ref_strand="+" ref_description="SGN-E342476 [cTOF-8-D7]">
      <seq>acaattcatttctttttatttattaaaattaaacctggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgggaagtggaagttattcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="46042"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45742" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="342" r_length="342" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342476" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>344</cumulative_length_of_scored_exons>
        <coverage percentage="1.006" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342476" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45742"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCAT</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACC-TGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGC-CCCAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGGGAAGTGGAAGTTATTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286071" ref_strand="+" ref_description="SGN-E286071 [cLES-13-C20]">
      <seq>acaattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45099" stop="45864"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45399" g_stop="45564" g_length="166"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="166" r_length="166" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286071" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>166</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286071" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45399" e_stop="45564"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCC</genome_strand>
        <mrna_strand>ACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E737398" ref_strand="+" ref_description="SGN-E737398 [LC09CF02]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctganccagttaacaacaacgcctgggctttgccacaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45100" stop="46554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45400" g_stop="46254" g_length="855"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="854" r_length="854" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E737398" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>855</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E737398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45400" e_stop="46254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCT</genome_strand>
        <mrna_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGANCCAGTTAACAACAACGCCTGGGC-TTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710719" ref_strand="+" ref_description="SGN-E710719 [FA56CA02]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45100" stop="46531"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45400" g_stop="46231" g_length="832"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="832" r_length="832" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E710719" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>832</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E710719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45400" e_stop="46231"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGA</genome_strand>
        <mrna_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E707060" ref_strand="+" ref_description="SGN-E707060 [FA31DG09]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaacacattgctgacccangtaacaacaacgcctgggcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45100" stop="46509"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45400" g_stop="46209" g_length="810"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="810" r_length="810" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E707060" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>810</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E707060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45400" e_stop="46209"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTT</genome_strand>
        <mrna_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGAACACATTGCTGACCCANGTAACAACAACGCCTGGGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345445" ref_strand="+" ref_description="SGN-E345445 [cTOF-13-N7]">
      <seq>caattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgacggttaccgtattgctggtgggcctcttggtgaggttgntgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45100" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45400" g_stop="46041" g_length="642"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="642" r_length="642" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345445" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>642</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345445" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45400" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>CAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGACGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348561" ref_strand="+" ref_description="SGN-E348561 [cTOF-30-L24]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggtttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgtgccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46339"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45401" g_stop="46039" g_length="639"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="639" r_length="639" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348561" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348561" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45401" e_stop="46039"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</genome_strand>
        <mrna_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGTTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGTGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296245" ref_strand="+" ref_description="SGN-E296245 [cLET-24-D24]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46312"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45401" g_stop="46012" g_length="612"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="612" r_length="612" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296245" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296245" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45401" e_stop="46012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319970" ref_strand="+" ref_description="SGN-E319970 [cTOB-31-O17]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46227"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45401" g_stop="45927" g_length="527"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="527" r_length="527" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319970" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>527</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319970" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45401" e_stop="45927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG</genome_strand>
        <mrna_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343481" ref_strand="+" ref_description="SGN-E343481 [cTOF-19-G21]">
      <seq>aattcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggagggtattcattgcagatgggccatgcttggtgctcttggaatgtgtttccccgagcttttggcacgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45101" stop="46099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45401" g_stop="45799" g_length="399"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="399" r_length="399" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E343481" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343481" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45401" e_stop="45799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGG-ATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>AATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGGTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAATGTG-TTTCCCCGAGCTTTTGGCACGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728491" ref_strand="+" ref_description="SGN-E728491 [LA18AA05]">
      <seq>attcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttccccggaagtgagtgcaacaaactgtttctccattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctggggtatggggtcagtaacagaataattgaaaattgggttggaataattaatgaatcttttcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45102" stop="46694"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45402" g_stop="46403" g_length="1002"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="1003" r_length="1003" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728491" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>1002</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728491" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45402" e_stop="46403"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACT-CTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGT-ACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACA</genome_strand>
        <mrna_strand>ATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCCGGAAGTGAGTGCAACAAACTGTTTCTCC-ATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGGTATGGGGTCAGTAACAGAATAATTGAAAATTGGGTTGGAATAATTAATGAATCTTTTCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299494" ref_strand="+" ref_description="SGN-E299494 [cLET-43-N16]">
      <seq>ttgcatttttttttatttattaaaattaaaccatggctgcttgtacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgtttagtacttgggcccattctctggtgaatcaccaaactatttgactggcgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaaaaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46186"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45402" g_stop="45886" g_length="485"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="485" r_length="485" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E299494" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E299494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45402" e_stop="45886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>TTGCATTTTTTTTTATTTATTAAAATTAAACCATGGCTGCTTGTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTTAGTACTTGGGCCCATTCTCTGGTGAATCACCAAACTATTTGACTGGCGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAAAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E313373" ref_strand="+" ref_description="SGN-E313373 [cTOA-13-A13]">
      <seq>attcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45102" stop="45860"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45402" g_stop="45560" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E313373" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>159</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E313373" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45402" e_stop="45560"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCA</genome_strand>
        <mrna_strand>ATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E736364" ref_strand="+" ref_description="SGN-E736364 [LC05CA07]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46585"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46285" g_length="883"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="883" r_length="883" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E736364" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>883</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E736364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46285"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726301" ref_strand="+" ref_description="SGN-E726301 [LA11BG02]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46254" g_length="852"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="852" r_length="852" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726301" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>852</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726301" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343880" ref_strand="+" ref_description="SGN-E343880 [cTOF-12-N11]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggtngttgatccactttaccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaatggtagacttgctatgttctccatgtttggatttctttgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46427"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46127" g_length="725"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="729" r_length="729" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E343880" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>725</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46127"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG-AAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGA-TTCTTTGTTC</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTNGTTGATCCACTTTACCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTTCTTTGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341933" ref_strand="+" ref_description="SGN-E341933 [cTOF-9-P15]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaagcttttgctgagctcaaggtgaaagagatcaagaatggtagacttgctatgttctccatgtttggattctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46424"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46124" g_length="722"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="722" r_length="722" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E341933" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>722</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E341933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46124"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAAGCTTTTGCTGAGCTCAAGGTGAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340866" ref_strand="+" ref_description="SGN-E340866 [cTOF-5-J24]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttaccctggntggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaggtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46372"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46072" g_length="670"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="671" r_length="671" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340866" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>670</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340866" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46072"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCTGG-TGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTACCCTGGNTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC-AGGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344071" ref_strand="+" ref_description="SGN-E344071 [cTOF-12-F16]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="46065" g_length="663"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="665" r_length="665" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344071" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>663</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344071" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="46065"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278669" ref_strand="+" ref_description="SGN-E278669 [cLER-10-B16]">
      <seq>ttcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttctccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45103" stop="46127"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45403" g_stop="45827" g_length="425"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E278669" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>425</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278669" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45403" e_stop="45827"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTAT</genome_strand>
        <mrna_strand>TTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTCTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730927" ref_strand="+" ref_description="SGN-E730927 [LA25CE11]">
      <seq>tcatttagggtcatttctttttatttattaaaattaaaccatcgttgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttccagctattgtcaccggaaagggtcccgttggaaaaccttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45104" stop="46485"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45404" g_stop="46185" g_length="782"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="793" r_length="783" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730927" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="0.986" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730927" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45404" e_stop="46185"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGT-CCGTTGGAGAACCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATCGTTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCCAGCTATTGTCACCGGAAAGGGTCCCGTTGGAAAACCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327661" ref_strand="+" ref_description="SGN-E327661 [cTOC-20-J24]">
      <seq>tcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcanggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45104" stop="46432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45404" g_stop="46132" g_length="729"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="729" r_length="729" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E327661" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E327661" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45404" e_stop="46132"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</genome_strand>
        <mrna_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCANGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324676" ref_strand="+" ref_description="SGN-E324676 [cTOC-8-C1]">
      <seq>tcatttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45104" stop="46246"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45404" g_stop="45946" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E324676" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324676" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45404" e_stop="45946"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</genome_strand>
        <mrna_strand>TCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740518" ref_strand="+" ref_description="SGN-E740518 [LC21DA12]">
      <seq>catttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaaccgcctgggcttttgccacaaactttgtttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45105" stop="46527"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45405" g_stop="46227" g_length="823"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="824" r_length="824" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E740518" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E740518" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45405" e_stop="46227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAA-CGCCTGGGCTTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>CATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACCGCCTGGGCTTTTGCCACAAACTTTGTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295481" ref_strand="+" ref_description="SGN-E295481 [cLET-23-E24]">
      <seq>tttttttttgtacattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45405" g_stop="45879" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295481" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295481" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45405" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738564" ref_strand="+" ref_description="SGN-E738564 [LC14AF03]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45106" stop="46590"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="46290" g_length="885"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="885" r_length="885" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E738564" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>885</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E738564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="46290"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E690273" ref_strand="+" ref_description="SGN-E690273 [LH_Ea03B07]">
      <seq>ccgtatttgtttttattaattattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccccggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggatgtgtattccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagctgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagcttaaagttaaggaaattaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggaccattggagaaccttgctgaccaccttgcagacccagttaacaacaacgcctgggcttttgctacaaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45109" stop="46522"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="46222" g_length="817"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="818" r_length="818" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E690273" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>817</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E690273" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="46222"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAA-AATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTT</genome_strand>
        <mrna_strand>CCGTATTTGTTTTTATTAATTATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCCGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTTAAAGTTAAGGAAATTAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGACCATTGGAGAACCTTGCTGACCACCTTGCAGACCCAGTTAACAACAACGCCTGGGCTTTTGCTACAAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345848" ref_strand="+" ref_description="SGN-E345848 [cTOF-24-E17]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagnttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggtggttgatccactttcccctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45106" stop="46361"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="46061" g_length="656"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="659" r_length="659" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345848" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>656</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345848" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="46061"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAG-TTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGNTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTGGTTGATCCACTTTCCCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E321398" ref_strand="+" ref_description="SGN-E321398 [cTOB-23-G15]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45106" stop="46308"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="46008" g_length="603"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="603" r_length="603" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E321398" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E321398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="46008"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCC</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344371" ref_strand="+" ref_description="SGN-E344371 [cTOF-16-J4]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45106" stop="46284"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="45984" g_length="579"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="579" r_length="579" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344371" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344371" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="45984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366040" ref_strand="+" ref_description="SGN-E366040 [cLPT-15-E14]">
      <seq>attcatttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggccgaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctgtggtaacccatggtatggccctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatctgactggcgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaacaatcgtgagttggaggctattcattgcagatgggccatgcttggagctcttgggtgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaaactgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45108" stop="46182"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="45882" g_length="477"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="477" r_length="477" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E366040" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>477</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E366040" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="45882"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>ATTCATTTCTTTTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGCCGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTGTGGTAACCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATCTGACTGGCGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAACAATCGTGAGTTGGAGGCTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGGTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAACTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318014" ref_strand="+" ref_description="SGN-E318014 [cTOA-30-D22]">
      <seq>atttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaacccaaccagcttctctggtacccatgtatggtcctgacgtgtagtacttgggaccatctccggggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45106" stop="45931"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45406" g_stop="45631" g_length="226"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="217" r_length="217" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318014" ref_strand="+">
        <total_alignment_score>0.947</total_alignment_score>
        <cumulative_length_of_scored_exons>226</cumulative_length_of_scored_exons>
        <coverage percentage="1.041" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318014" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45406" e_stop="45631"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAA</genome_strand>
        <mrna_strand>ATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAA-CCCAA-CCAGCTT-CTCTGGTA-CCCAT-GTATGGTCCTGA-CGTG-T-AGTACTTGGGACCA-TCTCCGGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344418" ref_strand="+" ref_description="SGN-E344418 [cTOF-14-M19]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46453"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="46153" g_length="747"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="747" r_length="747" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344418" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>747</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344418" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="46153"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E314303" ref_strand="+" ref_description="SGN-E314303 [cTOA-21-E24]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattggggccttgctgaagacccagaggcttttgctgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46363"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="46063" g_length="657"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="658" r_length="658" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E314303" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>657</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E314303" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="46063"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATT-GGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345570" ref_strand="+" ref_description="SGN-E345570 [cTOF-18-L6]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="45983" g_length="577"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="577" r_length="577" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345570" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>577</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345570" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="45983"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339060" ref_strand="+" ref_description="SGN-E339060 [cTOF-6-L12]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46268"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="45968" g_length="562"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="562" r_length="562" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339060" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>562</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="45968"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316221" ref_strand="+" ref_description="SGN-E316221 [cTOA-23-I18]">
      <seq>tttctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="45945" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="539" r_length="539" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E316221" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E316221" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324539" ref_strand="+" ref_description="SGN-E324539 [cTOC-9-K24]">
      <seq>tttctttttatttattaaaattaaaccatgggtgcttgggcaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46181"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="45881" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E324539" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="45881"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGGTGCTTGGGCAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318928" ref_strand="+" ref_description="SGN-E318928 [cTOB-11-D6]">
      <seq>tttctttttatttattattttcaaaccatggctgcttgtacaatggcgctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaatccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45407" g_stop="45879" g_length="473"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="473" r_length="473" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318928" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318928" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45407" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTCTTTTTATTTATTATTTTCAAACCATGGCTGCTTGTACAATGGCGCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAATCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288178" ref_strand="+" ref_description="SGN-E288178 [cLES-7-N17]">
      <seq>cccccgggctgcaggttctttttatttataaaatagaccatcgctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcttatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcaggggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45108" stop="46215"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45408" g_stop="45915" g_length="508"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="521" r_length="506" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288178" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="0.975" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288178" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45408" e_stop="45915"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>TTCTTTTTATTTA-TAAAAT-AGACCATCGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCTTATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCAGGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E699998" ref_strand="+" ref_description="SGN-E699998 [FA11DC09]">
      <seq>atcattcaagagtctttttatttattaaaattaaaccatggctgcctctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccaattaacaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45109" stop="46496"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45409" g_stop="46196" g_length="788"/>
          <reference_exon_boundary r_type="cDNA" r_start="13" r_stop="800" r_length="788" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E699998" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>788</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E699998" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45409" e_stop="46196"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACA</genome_strand>
        <mrna_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCCTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAATTAACAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326663" ref_strand="+" ref_description="SGN-E326663 [cTOC-17-O20]">
      <seq>tttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggntgntgatccactttaccctggtggtagctttgacccattgggccttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45111" stop="46340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45409" g_stop="46040" g_length="632"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="632" r_length="632" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E326663" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E326663" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45409" e_stop="46040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</genome_strand>
        <mrna_strand>TTTTTGTACATTCTAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGNTGNTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E298968" ref_strand="+" ref_description="SGN-E298968 [cLET-42-K8]">
      <seq>tctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45109" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45409" g_stop="45949" g_length="541"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="541" r_length="541" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E298968" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E298968" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45409" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E740455" ref_strand="+" ref_description="SGN-E740455 [LC21CA07]">
      <seq>ctttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45110" stop="46574"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45410" g_stop="46274" g_length="865"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="865" r_length="865" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E740455" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>865</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E740455" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45410" e_stop="46274"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATG</genome_strand>
        <mrna_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366524" ref_strand="+" ref_description="SGN-E366524 [cLPT-13-L8]">
      <seq>atttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccctagtttggtccatgcacaaagcattttggctatttgggcttgccaagttgtgctgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45111" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45410" g_stop="45947" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E366524" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E366524" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45410" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>ATTTCTTTTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCTAGTTTGGTCCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGCTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E265674" ref_strand="+" ref_description="SGN-E265674 [cLEI-14-J22]">
      <seq>ctttttatttattaaaattaaaccatggctgcgtgtacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggaccatactccggcgaagccccaagctatttgactggtgagatccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggatattcattgcagatgggccatgcttggtgctcttggatgtgtgttgctcgagcttttggcacgaaacggtgttaagttaggtgagagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45110" stop="46176"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45410" g_stop="45876" g_length="467"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E265674" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E265674" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45410" e_stop="45876"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGA-AGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTT</genome_strand>
        <mrna_strand>CTTTTTATTTATTAAAATTAAACCATGGCTGCGTGTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGACCATACTCCGGCGAAGCCCCAAGCTATTTGACTGGTGAGATCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGATATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTGTTGCTCGAGCTTTTGGCACGAAACGGTGTTAAGTTAGGTGAGAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E738929" ref_strand="+" ref_description="SGN-E738929 [LC15BH11]">
      <seq>tttttatttattaacattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45111" stop="46542"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45411" g_stop="46242" g_length="832"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="832" r_length="832" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E738929" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>832</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E738929" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45411" e_stop="46242"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCA</genome_strand>
        <mrna_strand>TTTTTATTTATTAACATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348916" ref_strand="+" ref_description="SGN-E348916 [cTOF-29-O15]">
      <seq>tttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgcccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccactttancctgggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaatggtagacttgctatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45111" stop="46405"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45411" g_stop="46105" g_length="695"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="699" r_length="699" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348916" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>695</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348916" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45411" e_stop="46105"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG-CCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCT-GGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG-AAGGAGATCAAGAATGGTAGACTTGCTATGTTC</genome_strand>
        <mrna_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTTANCCTGGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAATGGTAGACTTGCTATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E366575" ref_strand="+" ref_description="SGN-E366575 [cLPT-13-I24]">
      <seq>tttctttttattaatattaaatcatggctgcttctactatggctctttcttcctctgctttcgccggtaaggcggtaaaactctcaccatcttcttctgaaatcagtggaaatggtagaatcaccatgaggaagaccgttgccaagcctaagcctgcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattttctggtgaatcaccaagctatttgactggtgagttcccaggtgactacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggagctcttggttgtgttttccctgagcttttggcccgtaacggtgttaagtttggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaaccctagtttggtccatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45411" g_stop="45924" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E366575" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E366575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45411" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTCTTTTTATTAATATTAAATCATGGCTGCTTCTACTATGGCTCTTTCTTCCTCTGCTTTCGCCGGTAAGGCGGTAAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGTAGAATCACCATGAGGAAGACCGTTGCCAAGCCTAAGCCTGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTTTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCAGGTGACTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGAGCTCTTGGTTGTGTTTTCCCTGAGCTTTTGGCCCGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCTAGTTTGGTCCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289129" ref_strand="+" ref_description="SGN-E289129 [cLES-18-D5]">
      <seq>tttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45111" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45411" g_stop="45924" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E289129" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E289129" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45411" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E327941" ref_strand="+" ref_description="SGN-E327941 [cTOC-22-J19]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgaccattgggccttgctgaagaccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="46065" g_length="654"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="652" r_length="652" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E327941" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>654</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E327941" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="46065"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGA-CCATTGGGCCTTGCTGAAGA-CCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E270382" ref_strand="+" ref_description="SGN-E270382 [cLEM-1-L3]">
      <seq>agtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46343"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="46043" g_length="632"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="632" r_length="632" r_score="0.918"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E270382" ref_strand="+">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E270382" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="46043"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAG</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288225" ref_strand="+" ref_description="SGN-E288225 [cLES-16-A13]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacagatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagcttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagcttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46254"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45954" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288225" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288225" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45954"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACAGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGCTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGCTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293060" ref_strand="+" ref_description="SGN-E293060 [cLET-12-C2]">
      <seq>agtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45949" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.909"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293060" ref_strand="+">
        <total_alignment_score>0.909</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293060" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>AGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286369" ref_strand="+" ref_description="SGN-E286369 [cLES-11-F23]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcccgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45949" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286369" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286369" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCCGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286928" ref_strand="+" ref_description="SGN-E286928 [cLES-6-E7]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45949" g_length="538"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286928" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>538</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286928" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284448" ref_strand="+" ref_description="SGN-E284448 [cLER-16-P17]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46239"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45939" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="528" r_length="528" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284448" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>528</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284448" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45939"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTT</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284187" ref_strand="+" ref_description="SGN-E284187 [cLER-16-I19]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctactttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46182"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45882" g_length="471"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="471" r_length="471" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284187" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284187" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45882"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACTTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282640" ref_strand="+" ref_description="SGN-E282640 [cLER-15-C12]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45879" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282640" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>468</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328645" ref_strand="+" ref_description="SGN-E328645 [cTOC-23-P14]">
      <seq>ttttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacgatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatggtgtcttccccgagcttttggcacgtaacggtgttaagtttggagaagctgaatggttcaaagctgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46141"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45841" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="431" r_length="431" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E328645" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328645" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45841"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAT-GTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACGATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGGTGTCTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGAGAAGCTGAATGGTTCAAAGCTGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280947" ref_strand="+" ref_description="SGN-E280947 [cLER-7-E23]">
      <seq>ttttatttattaaaatcaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccaccttcctctggtagcccatggtatggacctgaccgtgttaagtacttgggcccattctctggtgaatcaccacgctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacatttgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgtttaccccgagcttttggcacgtaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45112" stop="46101"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45412" g_stop="45801" g_length="390"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="390" r_length="390" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280947" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280947" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45412" e_stop="45801"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAA</genome_strand>
        <mrna_strand>TTTTATTTATTAAAATCAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCACCTTCCTCTGGTAGCCCATGGTATGGACCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCACGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTTGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTACCCCGAGCTTTTGGCACGTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726222" ref_strand="-" ref_description="SGN-E726222 [LA11AG07]">
      <seq>ttttttttaatccaaaccaatttacaataatcttgtactgaacccataacccagaatgctttaaaaaactgaccctttttacagattcatctctcacaaagctaaaaactcataatctcacactaattggagaacagtttgttgcactcactttccgggaacaaagtttgtggcaaaagcccaggcgttgttgttaactgggtcagcaatgtggtcggcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttccccggagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccgtctttccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtttaattttaatacgtcgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46682" stop="45119"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46384" g_stop="46168" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="217" r_length="217" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46167" i_stop="46060" i_length="108">
            <donor d_prob="0.964" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46059" g_stop="45413" g_length="647"/>
          <reference_exon_boundary r_type="cDNA" r_start="218" r_stop="864" r_length="647" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E726222" ref_strand="-">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>864</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726222" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46384" e_stop="46168"/>
          <exon e_start="46059" e_stop="45413"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAA</genome_strand>
        <mrna_strand>TTTTTTTTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCTTTTTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAACAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCG............................................................................................................GCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGGGCTTCCCCGGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATACGTCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726635" ref_strand="+" ref_description="SGN-E726635 [LA12BF03]">
      <seq>gtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtcccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46528"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45413" g_stop="46228" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726635" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726635" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45413" e_stop="46228"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCC</genome_strand>
        <mrna_strand>GTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E287938" ref_strand="+" ref_description="SGN-E287938 [cLES-7-G13]">
      <seq>tttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45113" stop="46248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45413" g_stop="45948" g_length="536"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="536" r_length="536" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E287938" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E287938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45413" e_stop="45948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E300367" ref_strand="+" ref_description="SGN-E300367 [cLET-45-A5]">
      <seq>tttatttattaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45113" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45413" g_stop="45924" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="512" r_length="512" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E300367" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E300367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45413" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346376" ref_strand="+" ref_description="SGN-E346376 [cTOF-23-O17]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataccatgcttgggcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45117" stop="46496"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45414" g_stop="46208" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="794" r_length="794" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346376" ref_strand="+">
        <total_alignment_score>0.916</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45414" e_stop="46208"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAA-TACCATGCTTGGGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346244" ref_strand="+" ref_description="SGN-E346244 [cTOF-23-I12]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45117" stop="46437"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45414" g_stop="46137" g_length="724"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="724" r_length="724" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346244" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346244" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45414" e_stop="46137"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGT</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347139" ref_strand="+" ref_description="SGN-E347139 [cTOF-25-I15]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgtttgaggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaggtaaaagagatcaggatggtagacttgctatgttctcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45117" stop="46409"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45414" g_stop="46109" g_length="696"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="694" r_length="694" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E347139" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347139" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45414" e_stop="46109"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCA</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTTGAGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC-AGGTAAAAGAGATC-AGGATGGTAGACTTGCTATGTTCTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343235" ref_strand="+" ref_description="SGN-E343235 [cTOF-17-A12]">
      <seq>tttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttganggttaccgtattgctggtgggcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45117" stop="46283"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45414" g_stop="45983" g_length="570"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="570" r_length="570" r_score="0.918"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E343235" ref_strand="+">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>570</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343235" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45414" e_stop="45983"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTG</genome_strand>
        <mrna_strand>TTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGANGGTTACCGTATTGCTGGTGGGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732949" ref_strand="+" ref_description="SGN-E732949 [LB03CC10]">
      <seq>tctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaattagttgtttgctaattgtaatttacaagaacttataatatatatgagtattgtttatggatgaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45118" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45416" g_stop="46233" g_length="818"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="818" r_length="818" r_score="0.918"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E732949" ref_strand="+">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>818</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E732949" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45416" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294021" ref_strand="+" ref_description="SGN-E294021 [cLET-13-L18]">
      <seq>tctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45118" stop="46217"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45416" g_stop="45917" g_length="502"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="502" r_length="502" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294021" ref_strand="+">
        <total_alignment_score>0.908</total_alignment_score>
        <cumulative_length_of_scored_exons>502</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294021" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45416" e_stop="45917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTA</genome_strand>
        <mrna_strand>TCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734071" ref_strand="+" ref_description="SGN-E734071 [LB11CG12]">
      <seq>cattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctggggctttgccacaaactttgttcccggaaagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46537"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45417" g_stop="46233" g_length="817"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="817" r_length="817" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734071" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>817</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734071" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45417" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328480" ref_strand="+" ref_description="SGN-E328480 [cTOC-23-A13]">
      <seq>tttattaaaattaaaccatggctgcttctacaatggctcttttctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45117" stop="46260"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45417" g_stop="45960" g_length="544"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="544" r_length="544" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E328480" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>544</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328480" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45417" e_stop="45960"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</genome_strand>
        <mrna_strand>TTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTTCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726885" ref_strand="+" ref_description="SGN-E726885 [LA13AD10]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggccttttgcacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgtacgtctagtatcttattgtttgatgacaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="46233" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726885" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726885" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTTGCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729636" ref_strand="+" ref_description="SGN-E729636 [LA21CF02]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46534"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="46233" g_length="816"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="816" r_length="816" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729636" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>816</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729636" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727051" ref_strand="+" ref_description="SGN-E727051 [LA13CD04]">
      <seq>ccctttaagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggacctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggagaacctgtatggatcaaagctggatctcaaattttcaacgagggcggacttgactacttgggaaaccctagattggttcgtgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctccaggagaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45125" stop="46485"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="46185" g_length="768"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="767" r_length="767" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727051" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>768</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="46185"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>CCCTTTAAGTT-CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGACCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGAGAACCTGTATGGATCAAAGCTGGATCTCAAATTTTCAACGAGGGCGGACTTGACTACTTGGGAAACCCTAGATTGGTTCGTGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCCAGGAGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728208" ref_strand="+" ref_description="SGN-E728208 [LA17AC04]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagttggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctncaggtgaaggagatcaagaacggcagacttgctatngtctccatgtttggatttctttgtcaagctattgtcactgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46443"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="46143" g_length="726"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="727" r_length="727" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728208" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>726</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728208" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="46143"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAG-TGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGG</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTNCAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATNGTCTCCATGTTTGGATTTCTTTGTCAAGCTATTGTCACTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728781" ref_strand="+" ref_description="SGN-E728781 [LA18DG04]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcgggatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46400"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="46100" g_length="683"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="683" r_length="683" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728781" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>683</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728781" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="46100"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTA</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCGGGATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725893" ref_strand="+" ref_description="SGN-E725893 [LA08CF05]">
      <seq>attctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggcgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="45879" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="462" r_length="462" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725893" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725893" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>ATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282612" ref_strand="+" ref_description="SGN-E282612 [cLER-15-I9]">
      <seq>tcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45120" stop="46091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45418" g_stop="45791" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="374" r_length="374" r_score="0.906"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282612" ref_strand="+">
        <total_alignment_score>0.906</total_alignment_score>
        <cumulative_length_of_scored_exons>374</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282612" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45418" e_stop="45791"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTT</genome_strand>
        <mrna_strand>TCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697644" ref_strand="+" ref_description="SGN-E697644 [FA03CG06]">
      <seq>attaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45120" stop="46484"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45420" g_stop="46184" g_length="765"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="765" r_length="765" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E697644" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>765</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E697644" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45420" e_stop="46184"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACC</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285228" ref_strand="+" ref_description="SGN-E285228 [cLER-20-B16]">
      <seq>attaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45120" stop="46337"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45420" g_stop="46037" g_length="618"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="618" r_length="618" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285228" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>618</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285228" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45420" e_stop="46037"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTG</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725831" ref_strand="+" ref_description="SGN-E725831 [LA05DF09]">
      <seq>attaaaattaaaccatggctgcttatacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaacccta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45120" stop="46187"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45420" g_stop="45887" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725831" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>468</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45420" e_stop="45887"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTA</genome_strand>
        <mrna_strand>ATTAAAATTAAACCATGGCTGCTTATACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726799" ref_strand="+" ref_description="SGN-E726799 [LA12DD09]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgaggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45421" g_stop="46233" g_length="813"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="812" r_length="812" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726799" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>813</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45421" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGA-GGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735946" ref_strand="+" ref_description="SGN-E735946 [LC03DB08]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46535"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45421" g_stop="46233" g_length="813"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="813" r_length="813" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735946" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>813</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735946" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45421" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345831" ref_strand="+" ref_description="SGN-E345831 [cTOF-18-L4]">
      <seq>ttaaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45121" stop="46367"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45421" g_stop="46067" g_length="647"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="647" r_length="647" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345831" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>647</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45421" e_stop="46067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E202778" ref_strand="+" ref_description="SGN-E202778 [cLEB-1-H24]">
      <seq>gcacgagtaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattatcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46215"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45421" g_stop="45915" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E202778" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E202778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45421" e_stop="45915"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>GCACGAGTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTATCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725888" ref_strand="+" ref_description="SGN-E725888 [LA08CE12]">
      <seq>ctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattaccgatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46207"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45421" g_stop="45907" g_length="487"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="487" r_length="487" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725888" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45421" e_stop="45907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</genome_strand>
        <mrna_strand>CTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACCGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726903" ref_strand="+" ref_description="SGN-E726903 [LA13AF06]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgacccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgtacccggaaagtgaaagtaatttgggctaattaatgaaagttttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46543"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="46233" g_length="812"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="813" r_length="813" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726903" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726903" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGA-CCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTACCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727821" ref_strand="+" ref_description="SGN-E727821 [LA15DD05]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46537"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="46233" g_length="812"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="812" r_length="812" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727821" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>812</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727821" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344873" ref_strand="+" ref_description="SGN-E344873 [cTOF-21-H1]">
      <seq>taagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgntcaagctattgtcactgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46444"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="45971" g_length="550"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="550" r_length="550" r_score="0.971"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45972" i_stop="46040" i_length="69">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46041" g_stop="46144" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="551" r_stop="654" r_length="104" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344873" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>654</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344873" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="45971"/>
          <exon e_start="46041" e_stop="46144"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGA</genome_strand>
        <mrna_strand>TAAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG.....................................................................AAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGNTCAAGCTATTGTCACTGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728286" ref_strand="+" ref_description="SGN-E728286 [LA17BC08]">
      <seq>tcagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="46101" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728286" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728286" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="46101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTAT</genome_strand>
        <mrna_strand>TCAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728377" ref_strand="+" ref_description="SGN-E728377 [LA17CE06]">
      <seq>taacagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctncaggtgaaggagatcaagaacggcagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="46101" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="680" r_length="680" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728377" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728377" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="46101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTAT</genome_strand>
        <mrna_strand>TAACAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTNCAGGTGAAGGAGATCAAGAACGGCAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728847" ref_strand="+" ref_description="SGN-E728847 [LA19AF04]">
      <seq>taagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46396"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="46096" g_length="675"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="675" r_length="675" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728847" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>675</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728847" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="46096"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTT</genome_strand>
        <mrna_strand>TAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282872" ref_strand="+" ref_description="SGN-E282872 [cLER-15-L7]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="45924" g_length="503"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="503" r_length="503" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282872" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285779" ref_strand="+" ref_description="SGN-E285779 [cLES-5-I10]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46174"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="45874" g_length="453"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285779" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285779" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="45874"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290408" ref_strand="+" ref_description="SGN-E290408 [cLES-20-F13]">
      <seq>taaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46105"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45422" g_stop="45805" g_length="384"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="384" r_length="384" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E290408" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>384</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290408" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45422" e_stop="45805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGT</genome_strand>
        <mrna_strand>TAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705811" ref_strand="+" ref_description="SGN-E705811 [FA28AH01]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttccccggaaagtgaagtttttgagaagaaaaaaatgttacgtctagtatcttattgtttgatgacacccatgtaaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46233" g_length="811"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="811" r_length="811" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E705811" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>811</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E705811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726476" ref_strand="+" ref_description="SGN-E726476 [LA11DF11]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccngaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46233" g_length="811"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="811" r_length="811" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726476" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>811</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726476" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCNGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730548" ref_strand="+" ref_description="SGN-E730548 [LA24BH03]">
      <seq>caatgttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagaagaaaaaatgttacgtctagtatcttattgtttgatgacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45125" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46233" g_length="811"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="811" r_length="811" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730548" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>811</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730548" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CAATGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730045" ref_strand="+" ref_description="SGN-E730045 [LA22DE10]">
      <seq>cagatttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgccctgggcctttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46512"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46212" g_length="790"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="791" r_length="791" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730045" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46212"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACG-CCTGGGCTTTTGC</genome_strand>
        <mrna_strand>CAGATTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCCTGGGCCTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322970" ref_strand="+" ref_description="SGN-E322970 [cTOB-30-F21]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggangatcttgccgaccacattgctgaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46485"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46185" g_length="763"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="763" r_length="763" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E322970" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>763</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E322970" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46185"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCC</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGANGATCTTGCCGACCACATTGCTGACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340829" ref_strand="+" ref_description="SGN-E340829 [cTOF-5-J13]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgggaaggttggntgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46428"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46128" g_length="706"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="709" r_length="709" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340829" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>706</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340829" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTT-GTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG-AAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCA</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGGAAGGTTGGNTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346059" ref_strand="+" ref_description="SGN-E346059 [cTOF-24-B22]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggtttgttgatccacctttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaaggagatcaagaacggcagacttgctatgttctccatgtttggattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46421"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46121" g_length="699"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="702" r_length="702" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346059" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346059" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46121"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGG-TTGTTGATCCA-CTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG-AAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCT</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTTGTTGATCCACCTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348357" ref_strand="+" ref_description="SGN-E348357 [cTOF-27-E1]">
      <seq>aagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctgntggtagctttgacccattgggccttgctgaagacccnnagagctttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46361"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="46061" g_length="639"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="639" r_length="639" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348357" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>639</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348357" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="46061"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>AAGAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGNTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCNNAGAGCTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294527" ref_strand="+" ref_description="SGN-E294527 [cLET-22-E4]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="45947" g_length="525"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="525" r_length="525" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294527" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294527" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282592" ref_strand="+" ref_description="SGN-E282592 [cLER-15-C21]">
      <seq>aaaattaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45123" stop="46243"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="45943" g_length="521"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="521" r_length="521" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282592" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282592" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="45943"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATG</genome_strand>
        <mrna_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297812" ref_strand="+" ref_description="SGN-E297812 [cLET-38-L11]">
      <seq>aagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctaatttggttcatgcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45124" stop="46203"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45423" g_stop="45903" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297812" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297812" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45423" e_stop="45903"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACA</genome_strand>
        <mrna_strand>AAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAATTTGGTTCATGCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710278" ref_strand="+" ref_description="SGN-E710278 [FA54DG08]">
      <seq>cgagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttccagctattgtcactggaaagggtccattggaaaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46512"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45424" g_stop="46212" g_length="789"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="789" r_length="789" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E710278" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>789</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E710278" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45424" e_stop="46212"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGC</genome_strand>
        <mrna_strand>CGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCCAGCTATTGTCACTGGAAAGGGTCCATTGGAAAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282509" ref_strand="+" ref_description="SGN-E282509 [cLER-18-K24]">
      <seq>agagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46223"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45424" g_stop="45923" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282509" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>500</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45424" e_stop="45923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGG</genome_strand>
        <mrna_strand>AGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339073" ref_strand="+" ref_description="SGN-E339073 [cTOF-6-E3]">
      <seq>gagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgnaagagatcaagaacggcagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46410"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45425" g_stop="46110" g_length="686"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="686" r_length="686" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339073" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>686</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339073" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45425" e_stop="46110"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>GAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGNAAGAGATCAAGAACGGCAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735376" ref_strand="+" ref_description="SGN-E735376 [LC01BC11]">
      <seq>cggttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtaactttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaacgagatcaacaacggcagacttgctatgttctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46408"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45425" g_stop="46108" g_length="684"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="684" r_length="684" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735376" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>684</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45425" e_stop="46108"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCC</genome_strand>
        <mrna_strand>CGGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAACTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAACGAGATCAACAACGGCAGACTTGCTATGTTCTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347065" ref_strand="+" ref_description="SGN-E347065 [cTOF-25-P11]">
      <seq>gagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtctggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgacgttgttgatccactttaccctgatggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45425" g_stop="46041" g_length="617"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="617" r_length="617" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E347065" ref_strand="+">
        <total_alignment_score>0.969</total_alignment_score>
        <cumulative_length_of_scored_exons>617</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347065" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45425" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>GAGTTTATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTCTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGACGTTGTTGATCCACTTTACCCTGATGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293650" ref_strand="+" ref_description="SGN-E293650 [cLET-21-C21]">
      <seq>gagttcataatggctttttctattatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggcgattaccgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcacatgggccatgcttggtgctctaggatgtgttttccccgagcttttggcacgtaacggtgttaagatgggcgaagctgtatggttcaaagcctggagctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattatggctatttgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46226"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45425" g_stop="45926" g_length="502"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="503" r_length="503" r_score="0.942"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293650" ref_strand="+">
        <total_alignment_score>0.942</total_alignment_score>
        <cumulative_length_of_scored_exons>502</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293650" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45425" e_stop="45926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAG-CTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTT</genome_strand>
        <mrna_strand>GAGTTCATAATGGCTTTTTCTATTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGCGATTACCGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGTGCTCTAGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGATGGGCGAAGCTGTATGGTTCAAAGCCTGGAGCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTATGGCTATTTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E362510" ref_strand="+" ref_description="SGN-E362510 [cLPP-1-E3]">
      <seq>ttcttacaatggctgcttctacaatggctctttcctcctctacctttgccggaaaggcagtgaaactctcaccatcttcctctgaaatcaccggaaatgggagaatcaccatgaggaagactgctgccaaggcaaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatccccaagctacttgactggtgagttccctggtgactacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgaattggaggtgattcactgcagatgggccatgcttggagctcttggatgcgtcttccctgagcttttggcccgtaacggtgtcaagtttggtgaagctgtatggttcaaggctggatcccaaattttcagcgagggtggactcgactacttgggaaacccaagcttggtccatgcacaaagcatcttggctatttgggcttgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45131" stop="46284"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45426" g_stop="45984" g_length="559"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="559" r_length="559" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E362510" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>559</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E362510" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45426" e_stop="45984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>TTCTTACAATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTTGCCGGAAAGGCAGTGAAACTCTCACCATCTTCCTCTGAAATCACCGGAAATGGGAGAATCACCATGAGGAAGACTGCTGCCAAGGCAAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCCCCAAGCTACTTGACTGGTGAGTTCCCTGGTGACTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAATTGGAGGTGATTCACTGCAGATGGGCCATGCTTGGAGCTCTTGGATGCGTCTTCCCTGAGCTTTTGGCCCGTAACGGTGTCAAGTTTGGTGAAGCTGTATGGTTCAAGGCTGGATCCCAAATTTTCAGCGAGGGTGGACTCGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATCTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E341582" ref_strand="+" ref_description="SGN-E341582 [cTOE-23-H12]">
      <seq>attaaaccatggctgcttctacaatggctcttttctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattactgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45426" g_stop="45948" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="523" r_length="523" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E341582" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E341582" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45426" e_stop="45948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>ATTAAACCATGGCTGCTTCTACAATGGCTCTTTTCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACTGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295030" ref_strand="+" ref_description="SGN-E295030 [cLET-40-G11]">
      <seq>agttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgagagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46199"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45426" g_stop="45899" g_length="474"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="474" r_length="474" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295030" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295030" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45426" e_stop="45899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>AGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGAGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735364" ref_strand="+" ref_description="SGN-E735364 [LC01BB03]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttggtcaagctattgtcactggaaagggtccattggagaatcttgccgaccccattgctgacccagttaacaacaacgcctggggccttgccacaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46517"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45427" g_stop="46217" g_length="791"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="791" r_length="791" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735364" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>791</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45427" e_stop="46217"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAA</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGGTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCCATTGCTGACCCAGTTAACAACAACGCCTGGGGCCTTGCCACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E700266" ref_strand="+" ref_description="SGN-E700266 [FA12CE11]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggcccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45427" g_stop="46206" g_length="780"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="780" r_length="780" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E700266" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>780</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E700266" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45427" e_stop="46206"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGCCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729655" ref_strand="+" ref_description="SGN-E729655 [LA21CG12]">
      <seq>gttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcacaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46483"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45427" g_stop="46183" g_length="757"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="757" r_length="757" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729655" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>757</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729655" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45427" e_stop="46183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAC</genome_strand>
        <mrna_strand>GTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCACACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288931" ref_strand="+" ref_description="SGN-E288931 [cLES-17-C8]">
      <seq>ttaaaccatggctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45127" stop="46265"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45427" g_stop="45965" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="539" r_length="539" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288931" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288931" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45427" e_stop="45965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTA</genome_strand>
        <mrna_strand>TTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285690" ref_strand="+" ref_description="SGN-E285690 [cLES-5-B18]">
      <seq>ttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46247"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45428" g_stop="45947" g_length="520"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="520" r_length="520" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285690" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>520</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285690" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45428" e_stop="45947"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</genome_strand>
        <mrna_strand>TTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290858" ref_strand="+" ref_description="SGN-E290858 [cLET-10-D1]">
      <seq>tcataatggctgcttctactatggctctatcctcctctactttcgccggtaaggcggggaaactgtcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgagttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagtcggagggtattcattgcaaatgggccacgcttggtgctcttggatgtgcattccccgagcttttggcacgtaacggtgttaagtttggcgaagctggatggttcaaagctggatctcaaattttcaccgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggctcgccaagttgtgttgatgggagccgttgaaggttaccgtattgctggagggcctcttggtgagggtgttgatccactttaccctggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46312"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45429" g_stop="46012" g_length="584"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="584" r_length="584" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E290858" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290858" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45429" e_stop="46012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTCTACTATGGCTCTATCCTCCTCTACTTTCGCCGGTAAGGCGGGGAAACTGTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGAGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTCGGAGGGTATTCATTGCAAATGGGCCACGCTTGGTGCTCTTGGATGTGCATTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGGATGGTTCAAAGCTGGATCTCAAATTTTCACCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTCGCCAAGTTGTGTTGATGGGAGCCGTTGAAGGTTACCGTATTGCTGGAGGGCCTCTTGGTGAGGGTGTTGATCCACTTTACCCTGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285188" ref_strand="+" ref_description="SGN-E285188 [cLER-20-F5]">
      <seq>tcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45429" g_stop="45949" g_length="521"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="521" r_length="521" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285188" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285188" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45429" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200146" ref_strand="+" ref_description="SGN-E200146 [cLEB-7-L2]">
      <seq>gcacgaggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcaaatgggccatgcttggtgctcttggatgtgttttccccgagcttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45131" stop="46093"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45429" g_stop="45793" g_length="365"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="364" r_length="364" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E200146" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>365</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E200146" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45429" e_stop="45793"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTG</genome_strand>
        <mrna_strand>GCACGA-GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAAATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296973" ref_strand="+" ref_description="SGN-E296973 [cLET-26-D24]">
      <seq>tcataatggctgcttgtactatggctctttcctcctctactttcgccggtcaggcggtgaaactctcaccatcttcttctgaaatcattggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgagttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaataaccgggagttggaggttattcattgcacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46049"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45429" g_stop="45749" g_length="321"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="321" r_length="321" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296973" ref_strand="+">
        <total_alignment_score>0.941</total_alignment_score>
        <cumulative_length_of_scored_exons>321</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296973" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45429" e_stop="45749"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGAT</genome_strand>
        <mrna_strand>TCATAATGGCTGCTTGTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTCAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCATTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGAGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAATAACCGGGAGTTGGAGGTTATTCATTGCACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727128" ref_strand="+" ref_description="SGN-E727128 [LA13DC07]">
      <seq>cctaatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaaatgttacgtctagtatcttattgtttgatgacaaccatgtaaacctagcaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45430" g_stop="46233" g_length="804"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="804" r_length="804" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727128" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="0.915" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727128" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45430" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CCTAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729742" ref_strand="+" ref_description="SGN-E729742 [LA21DH04]">
      <seq>cataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46534"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45430" g_stop="46233" g_length="804"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="804" r_length="804" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729742" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729742" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45430" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282314" ref_strand="+" ref_description="SGN-E282314 [cLER-18-E5]">
      <seq>cataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46215"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45430" g_stop="45915" g_length="486"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="486" r_length="486" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282314" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>486</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282314" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45430" e_stop="45915"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</genome_strand>
        <mrna_strand>CATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E726416" ref_strand="+" ref_description="SGN-E726416 [LA11DA05]">
      <seq>aacaacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccaacctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggagattacggatgggacactgctggactttcagctgaccctgaaacattcactaagaaccgagagttggaggttattcattgtaaatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccatttggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttccccacaaactttgtccccggaaaataaaaatcttaaaacattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46537"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46233" g_length="801"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="850" r_length="802" r_score="0.918"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E726416" ref_strand="+">
        <total_alignment_score>0.918</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.920" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E726416" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCC-GTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAACCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGAGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCACTAAGAACCGAGAGTTGGAGGTTATTCATTGTAAATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCCCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731814" ref_strand="+" ref_description="SGN-E731814 [LA28BA10]">
      <seq>ctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcggcacaaactttgtccccggaaagtgaagttttttaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46233" g_length="801"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="839" r_length="801" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731814" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731814" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGGCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731836" ref_strand="+" ref_description="SGN-E731836 [LA28BC09]">
      <seq>caagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaaattag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46233" g_length="801"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="826" r_length="801" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731836" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731836" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735029" ref_strand="+" ref_description="SGN-E735029 [LB14BA02]">
      <seq>ccatttaaggggtaatggctgcttctactatggctctttcctcccctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggaaaatcttgccgaccacattgctgacccagttaacaacaacgcctggggcctttgccacaaactttgttcccgggaaagtgaagtttttgagaaaaaaaaatgttacgtcctagaatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46233" g_length="801"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="815" r_length="802" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="829" polyA_stop="839"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735029" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCT-GGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCCCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAAAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGGCCTTTGCCACAAACTTTGTTCCCGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E722338" ref_strand="+" ref_description="SGN-E722338 [FC16DH07]">
      <seq>gggcgattggcggccaatcggccgaattgcttctttttttgccattctaagagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtgtaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45122" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46233" g_length="801"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="859" r_length="801" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E722338" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>801</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E722338" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGTAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729846" ref_strand="+" ref_description="SGN-E729846 [LA22BB10]">
      <seq>ccttttctttttgacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccgggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46500"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46200" g_length="768"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="812" r_length="769" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729846" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>768</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729846" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46200"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACC-GGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731871" ref_strand="+" ref_description="SGN-E731871 [LA28BF11]">
      <seq>tgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46488"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46188" g_length="756"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="789" r_length="756" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731871" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>756</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731871" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46188"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710733" ref_strand="+" ref_description="SGN-E710733 [FA56CB07]">
      <seq>ccttgagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggcggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaacgagatcaagaacggcagacttgctatgttcctccctgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccccattggctgaccccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46485"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46187" g_length="755"/>
          <reference_exon_boundary r_type="cDNA" r_start="13" r_stop="769" r_length="757" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E710733" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E710733" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46187"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTT-CTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATT-GCTGACCCAG</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGCGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAACGAGATCAAGAACGGCAGACTTGCTATGTTCCTCCCTGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCCCATTGGCTGACCCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E708018" ref_strand="-" ref_description="SGN-E708018 [FA34CE03]">
      <seq>acaaagaatcccaaacatggagaacatagcaagtctaccattcttgatctcattcaccgtgagctcagcaaaagcctttgggtcttcagcaaggcccaagggatcaaagctaccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttccccggagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgcgagtttcaccgtctttccggcgaaggtagaggaggaaagagccattgtagaagcagccatggtctaaatgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46425" stop="45125"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46125" g_stop="46030" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="97" r_length="97" r_score="0.948"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="46029" i_stop="45980" i_length="50">
            <donor d_prob="0.000" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.44"/>
          </gDNA_intron_boundary>
          <shorter_than_min_intron_len/>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="45979" g_stop="45433" g_length="547"/>
          <reference_exon_boundary r_type="cDNA" r_start="98" r_stop="656" r_length="559" r_score="0.945"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E708018" ref_strand="-">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>643</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E708018" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46125" e_stop="46030"/>
          <exon e_start="45979" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAAAGAAT-CCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGA---G------GC--CCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGG-AAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>ACAAAGAATCCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCATTCACCGTGAGCTCAGCAAAAGCCTTTGGGTCTTCAGCAAGGCCC..................................................AAGGGATCAAAGCTACCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGGGCTTCCCCGGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731108" ref_strand="+" ref_description="SGN-E731108 [LA26AF11]">
      <seq>ctatattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46410"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46110" g_length="678"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="710" r_length="678" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731108" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>678</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731108" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46110"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342361" ref_strand="+" ref_description="SGN-E342361 [cTOF-8-F20]">
      <seq>taccattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaagggtgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggctnttgctgagctcaaggtaaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46376"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46076" g_length="644"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="677" r_length="645" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342361" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>644</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342361" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46076"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGGTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTNTTGCTGAGCTCAAGGTAAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339843" ref_strand="+" ref_description="SGN-E339843 [cTOF-3-I3]">
      <seq>ttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgctgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46370"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46070" g_length="638"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="680" r_length="638" r_score="0.934"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339843" ref_strand="+">
        <total_alignment_score>0.934</total_alignment_score>
        <cumulative_length_of_scored_exons>638</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339843" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46070"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGCTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343298" ref_strand="-" ref_description="SGN-E343298 [cTOF-17-B2]">
      <seq>ttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaaaaaaaaaaaactcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46368" stop="45103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46068" g_stop="45433" g_length="636"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="636" r_length="636" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="654" polyA_stop="674"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343298" ref_strand="-">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343298" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46068" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728033" ref_strand="+" ref_description="SGN-E728033 [LA16CA05]">
      <seq>ttctctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46367"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46067" g_length="635"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="677" r_length="635" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728033" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728033" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728668" ref_strand="+" ref_description="SGN-E728668 [LA18CC05]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46066" g_length="634"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="658" r_length="634" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728668" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>634</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728668" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731057" ref_strand="+" ref_description="SGN-E731057 [LA26AA12]">
      <seq>gtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46066" g_length="634"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="666" r_length="634" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731057" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>634</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728763" ref_strand="+" ref_description="SGN-E728763 [LA18DE04]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46065" g_length="633"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="657" r_length="633" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728763" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>633</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728763" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46065"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344623" ref_strand="-" ref_description="SGN-E344623 [cTOF-14-O12]">
      <seq>ctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaaaaaaaaaaaactcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46363" stop="45103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46063" g_stop="45433" g_length="631"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="631" r_length="631" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="649" polyA_stop="669"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E344623" ref_strand="-">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>631</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344623" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46063" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>CTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344666" ref_strand="+" ref_description="SGN-E344666 [cTOF-14-B24]">
      <seq>acattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccannagcttttgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46348"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46061" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="659" r_length="629" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344666" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344666" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46061"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCANNAGCTTTTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343164" ref_strand="-" ref_description="SGN-E343164 [cTOF-17-D23]">
      <seq>cagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaaagtggatcaacnaccctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaagaaaaaaaaaactcgagactagttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46361" stop="45103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46061" g_stop="45433" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="631" r_length="631" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="659" polyA_stop="669"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E343164" ref_strand="-">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343164" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="46061" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGT-AAAGTGGATCAACAA-CCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>CAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAAGTGGATCAACNACCCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E202855" ref_strand="+" ref_description="SGN-E202855 [cLEB-1-M22]">
      <seq>gcacgaggtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46345"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46045" g_length="613"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="652" r_length="613" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E202855" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>613</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E202855" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46045"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGAC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348955" ref_strand="+" ref_description="SGN-E348955 [cTOF-29-K24]">
      <seq>aacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatgggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46343"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46043" g_length="611"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="658" r_length="613" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348955" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46043"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAAT-GGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347145" ref_strand="+" ref_description="SGN-E347145 [cTOF-25-K17]">
      <seq>aagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtgggtagcttgacccactgggccttgctgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46343"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46043" g_length="611"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="635" r_length="611" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E347145" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347145" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46043"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGT-GGTAGCTTTGACCCATTGGGCCTTGCTGAAG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGGTAGC-TTGACCCACTGGGCCTTGCTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E697342" ref_strand="+" ref_description="SGN-E697342 [FA02BB05]">
      <seq>ccctttagttcataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggcgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggctcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcccgttgagggtaaccgtattgctggtgggcctcttggcgaagttgctgatccactttacccaggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45126" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46041" g_length="609"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="623" r_length="610" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E697342" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>609</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E697342" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG-CCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGCGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGCTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCCGTTGAGGGTAACCGTATTGCTGGTGGGCCTCTTGGCGAAGTTGCTGATCCACTTTACCCAGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728767" ref_strand="+" ref_description="SGN-E728767 [LA18DE08]">
      <seq>caacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctatgacccactgggccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46338"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46038" g_length="606"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="652" r_length="606" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728767" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46038"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTATGACCCACTGGGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290888" ref_strand="+" ref_description="SGN-E290888 [cLET-10-L7]">
      <seq>tttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46324"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46024" g_length="592"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="627" r_length="592" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E290888" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>592</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E290888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46024"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGAC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295114" ref_strand="+" ref_description="SGN-E295114 [cLET-20-E4]">
      <seq>ttttgtacattcaagagtttcttattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46310"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="46010" g_length="578"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="614" r_length="578" r_score="0.931"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295114" ref_strand="+">
        <total_alignment_score>0.931</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295114" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="46010"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346513" ref_strand="+" ref_description="SGN-E346513 [cTOF-28-C11]">
      <seq>tttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgcccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46280"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45980" g_length="548"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="590" r_length="549" r_score="0.929"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346513" ref_strand="+">
        <total_alignment_score>0.929</total_alignment_score>
        <cumulative_length_of_scored_exons>548</cumulative_length_of_scored_exons>
        <coverage percentage="0.929" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346513" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45980"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTG-CCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284421" ref_strand="+" ref_description="SGN-E284421 [cLER-16-F11]">
      <seq>gtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45948" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="548" r_length="516" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284421" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284421" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347706" ref_strand="-" ref_description="SGN-E347706 [cTOF-26-I9]">
      <seq>tcccatcaacacaacttggcaagcccaaaaagccaaaatgctttgtgcatgaccaaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46246" stop="45103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45946" g_stop="45433" g_length="514"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="514" r_length="514" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="532" polyA_stop="551"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E347706" ref_strand="-">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="0.933" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347706" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45946" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TCCCATCAACACAACTTGGCAAGCCCAAAAAGCCAAAATGCTTTGTGCATGACCAAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725580" ref_strand="+" ref_description="SGN-E725580 [LA04AE06]">
      <seq>ctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctnggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45945" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="39" r_stop="551" r_length="513" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725580" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTNGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E319580" ref_strand="+" ref_description="SGN-E319580 [cTOB-15-F8]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45945" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="544" r_length="513" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E319580" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E319580" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203304" ref_strand="+" ref_description="SGN-E203304 [cLEB-3-F9]">
      <seq>gcacgaggtttttttgtacattctaagagtttataatggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcaactgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45107" stop="46242"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45942" g_length="510"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="544" r_length="510" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E203304" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>510</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E203304" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45942"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</genome_strand>
        <mrna_strand>AATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAACTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728971" ref_strand="+" ref_description="SGN-E728971 [LA19CC03]">
      <seq>tgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgcccttgcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46230"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45930" g_length="498"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="531" r_length="498" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728971" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>498</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728971" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45930"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGCCCTTGCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291754" ref_strand="+" ref_description="SGN-E291754 [cLET-6-J4]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46228"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45928" g_length="496"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="532" r_length="496" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291754" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>496</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291754" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293135" ref_strand="+" ref_description="SGN-E293135 [cLET-12-J9]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46225"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45925" g_length="493"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="529" r_length="493" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293135" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>493</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293135" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286710" ref_strand="+" ref_description="SGN-E286710 [cLES-14-D23]">
      <seq>ttgtacattcaagagtctctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggctaaactctgcccatcttcttctgaaatcaccggaaatgggagagtcaccatgatgaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgcgaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattctctaagaaccgtgagttggaggttattcattgaagatgggccatgcttggtgctcttggatgcgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacacattttcagcgagggtggactagactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45115" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45924" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="526" r_length="492" r_score="0.907"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286710" ref_strand="+">
        <total_alignment_score>0.907</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGCTAAACTCTGCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGATGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGCGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCTCTAAGAACCGTGAGTTGGAGGTTATTCATTGAAGATGGGCCATGCTTGGTGCTCTTGGATGCGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACACATTTTCAGCGAGGGTGGACTAGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293542" ref_strand="+" ref_description="SGN-E293542 [cLET-15-D13](-)">
      <seq>gcccagatagccaaaatgctttgtgcatggaccaagcttgggtttcccaagtagtcaagtccaccctcgctgaaaatttgtgatccagccttgaaccatacagcttcaccgaacttaacaccattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcaccaggaaactcaccggtcaagtagcttggggattccccagagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaggctggcttggccttggtagcagttttcctcatggtgactctcccatttccggtgatttcagaagaagatggggagagtttaaccgcctttccggcaaatgtagaggaagaaagagccatggtagaagtagccattatagaagtagaatgagaaactcttgaatgtacaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46224" stop="45114"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45924" g_stop="45433" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E293542" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293542" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45924" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>GCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGCAAATGTAGAGGAAGAAAGAGCCATGGTAGAAGTAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292029" ref_strand="+" ref_description="SGN-E292029 [cLET-7-P1]">
      <seq>aacttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45924" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="537" r_length="492" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E292029" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="0.916" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293541" ref_strand="+" ref_description="SGN-E293541 [cLET-15-D13]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45924" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="528" r_length="492" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293541" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293541" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283909" ref_strand="+" ref_description="SGN-E283909 [cLER-13-I22]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46218"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45919" g_length="487"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="518" r_length="487" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E283909" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45919"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725991" ref_strand="+" ref_description="SGN-E725991 [LA08DH03]">
      <seq>ttttctttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacanagcattttggctatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46218"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45919" g_length="487"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="529" r_length="487" r_score="0.922"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725991" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="0.921" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45919"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACANAGCATTTTGGCTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289453" ref_strand="+" ref_description="SGN-E289453 [cLET-3-D24]">
      <seq>tttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgcgttaagtacttgggaccattctctggggaatccccaagctacttgaccggcgagtttcctggagattaccgatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggctcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46209"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45909" g_length="477"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="512" r_length="477" r_score="0.910"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E289453" ref_strand="+">
        <total_alignment_score>0.910</total_alignment_score>
        <cumulative_length_of_scored_exons>477</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E289453" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45909"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCAT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGCGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGCGAGTTTCCTGGAGATTACCGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGCTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282719" ref_strand="+" ref_description="SGN-E282719 [cLER-15-F4]">
      <seq>tttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46202"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45902" g_length="470"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="507" r_length="470" r_score="0.921"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282719" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>470</cumulative_length_of_scored_exons>
        <coverage percentage="0.927" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45902"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCAC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292361" ref_strand="+" ref_description="SGN-E292361 [cLET-1-K22]">
      <seq>tacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatgggtcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46184"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45884" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="483" r_length="452" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E292361" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292361" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45884"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGGTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725938" ref_strand="+" ref_description="SGN-E725938 [LA08DB12]">
      <seq>aacaacttttctttttgtacattcaagagtttctcatgctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgaatggtgttaagttcggtgaagctgnatggttcaaggctggatcacaaattttcacgnagggtggacttgactacttgggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45125" stop="46182"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45882" g_length="450"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="497" r_length="449" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725938" ref_strand="+">
        <total_alignment_score>0.916</total_alignment_score>
        <cumulative_length_of_scored_exons>450</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45882"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAA</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCG-AATGGTGTTAAGTTCGGTGAAGCTGNATGGTTCAAGGCTGGATCACAAATTTTCACGNAGGGTGGACTTGACTACTTGGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E281608" ref_strand="+" ref_description="SGN-E281608 [cLER-14-C15]">
      <seq>ttttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46174"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45874" g_length="442"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="478" r_length="442" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E281608" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>442</cumulative_length_of_scored_exons>
        <coverage percentage="0.925" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E281608" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45874"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTAC</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223169" ref_strand="+" ref_description="SGN-E223169 [cLEL-14-J22](-)">
      <seq>gaaaatttgagatccagctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaaagaacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46153" stop="45107"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45853" g_stop="45433" g_length="421"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="421" r_length="421" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="438" polyA_stop="450"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E223169" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>421</cumulative_length_of_scored_exons>
        <coverage percentage="0.936" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223169" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45853" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>GAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280151" ref_strand="+" ref_description="SGN-E280151 [cLEL-7-A24](-)">
      <seq>taacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagagggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46109" stop="45131"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45809" g_stop="45433" g_length="377"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="377" r_length="377" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280151" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>377</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280151" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45809" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGAGGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279358" ref_strand="+" ref_description="SGN-E279358 [cLEL-4-L6](-)">
      <seq>gttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcgcgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgacagtagaggaggaaagagccatagtagaagcagccattataaacctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46102" stop="45134"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45802" g_stop="45433" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279358" ref_strand="+">
        <total_alignment_score>0.965</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45802" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>GTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCGCGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGACAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280067" ref_strand="+" ref_description="SGN-E280067 [cLEL-7-B6](-)">
      <seq>ttacgtgccaaaagctcggggaaaacacatcccagagcaccaagcatggcccatctgcaatgaataacctcccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagcctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46101" stop="45131"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45801" g_stop="45433" g_length="369"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="370" r_length="370" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280067" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>369</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45801" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCC-AACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TTACGTGCCAAAAGCTCGGGGAAAACACATCCCAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297909" ref_strand="+" ref_description="SGN-E297909 [cLET-38-K20]">
      <seq>ttgtacattcaagagtttctcattctacttctataatggctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45114" stop="46099"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45433" g_stop="45799" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="401" r_length="367" r_score="0.921"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297909" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>367</cumulative_length_of_scored_exons>
        <coverage percentage="0.915" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45433" e_stop="45799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT</genome_strand>
        <mrna_strand>AATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E223668" ref_strand="+" ref_description="SGN-E223668 [cLEL-14-J22](-)">
      <seq>gagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46067" stop="45107"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45767" g_stop="45433" g_length="335"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="335" r_length="335" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="353" polyA_stop="363"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E223668" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>335</cumulative_length_of_scored_exons>
        <coverage percentage="0.923" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223668" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45767" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>GAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279177" ref_strand="+" ref_description="SGN-E279177 [cLEL-4-D16](-)">
      <seq>tggcccatctgcaatgaataacctcccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagcctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46055" stop="45131"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45755" g_stop="45433" g_length="323"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="324" r_length="324" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E279177" ref_strand="+">
        <total_alignment_score>0.957</total_alignment_score>
        <cumulative_length_of_scored_exons>323</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279177" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45755" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCCCATCTGCAATGAATAACCT-CCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TGGCCCATCTGCAATGAATAACCTCCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E237304" ref_strand="+" ref_description="SGN-E237304 [cLEL-7-J24](-)">
      <seq>aactcacgattcttagcgaatgtttcagggtcagctgaaagcccagccgtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggtgattcaccagagaatgggcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggcaggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactgatttcagaagaagatggtgagagtttcaccgccttaccggcgaaagtagaggaggaaagagccatagtagaagcagccattataaactcttagaatgtacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46029" stop="45103"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45729" g_stop="45433" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="297" r_length="297" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="315" polyA_stop="329"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E237304" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>297</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E237304" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45729" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>AACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCCGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280772" ref_strand="+" ref_description="SGN-E280772 [cLEL-6-E18](-)">
      <seq>taatcatcagggtactcaccagtccaatagcttgaggcttccccgtagaaaggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttcctcattgtaattctcccatttccactactgcagaagaagatggtgcgagtttcctacctttccggcgaaggtagaggagaaaagagccattgtagaagcagcctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45969" stop="45131"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45669" g_stop="45433" g_length="237"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="235" r_length="235" r_score="0.911"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280772" ref_strand="+">
        <total_alignment_score>0.911</total_alignment_score>
        <cumulative_length_of_scored_exons>237</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280772" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45669" e_stop="45433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATG</genome_strand>
        <mrna_strand>TAATCATCAGGGTACTCACCAGTCCAATAGCTTGAGGCTTCCCCGTAGAAAGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACT-ACTGCAGAAGAAGATGGTGCGAGTTTC-CTACCTTTCCGGCGAAGGTAGAGGAGAAAAGAGCCATTGTAGAAGCAGCCTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286556" ref_strand="+" ref_description="SGN-E286556 [cLES-12-C23]">
      <seq>atggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45134" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45434" g_stop="45949" g_length="516"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="516" r_length="516" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286556" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286556" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45434" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728358" ref_strand="+" ref_description="SGN-E728358 [LA17CC10]">
      <seq>ccttattctacttctataagtggctacttctaccatggctctttcttcctctacatttgccggataggcggtataaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgcgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggcgaagctgtatggttctgagctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtacatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgtagacccactctaccctggtggtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45188" stop="46317"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45435" g_stop="46017" g_length="583"/>
          <reference_exon_boundary r_type="cDNA" r_start="21" r_stop="604" r_length="584" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728358" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>583</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728358" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45435" e_stop="46017"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGT-GAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAG</genome_strand>
        <mrna_strand>TGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGATAGGCGGTATAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGCGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGCGAAGCTGTATGGTTCTGAGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTACATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTAGACCCACTCTACCCTGGTGGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734106" ref_strand="+" ref_description="SGN-E734106 [LB11DB12]">
      <seq>cgctacttctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtccccggaaagtgaagtttttaaaaattagttgtttgctaattgtaaattac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45436" g_stop="46233" g_length="798"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="798" r_length="798" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734106" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734106" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45436" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>CGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727244" ref_strand="+" ref_description="SGN-E727244 [LA14AF01]">
      <seq>ggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaagtgaagtttttgagagaaaaaatgttacgtctagtatcttattgtttgatgacnaccatgtaaacctagcaattgtagattact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45136" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45436" g_stop="46233" g_length="798"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="798" r_length="798" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727244" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>798</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727244" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45436" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E725602" ref_strand="+" ref_description="SGN-E725602 [LA04AG08]">
      <seq>ggctgcttctacaatggctctttcctcctctacctttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcanagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45136" stop="46199"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45436" g_stop="45899" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="465" r_length="465" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E725602" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E725602" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45436" e_stop="45899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACC-TTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCANAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283408" ref_strand="+" ref_description="SGN-E283408 [cLER-12-M8]">
      <seq>ggctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45136" stop="46199"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45436" g_stop="45899" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="464" r_length="464" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E283408" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283408" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45436" e_stop="45899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</genome_strand>
        <mrna_strand>GGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E323493" ref_strand="+" ref_description="SGN-E323493 [cTOC-7-M21]">
      <seq>gttcaagagtttctcattctacttctataggggctactgctaccatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45136" stop="46137"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45436" g_stop="45837" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="433" r_length="402" r_score="0.923"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E323493" ref_strand="+">
        <total_alignment_score>0.923</total_alignment_score>
        <cumulative_length_of_scored_exons>402</cumulative_length_of_scored_exons>
        <coverage percentage="0.928" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E323493" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45436" e_stop="45837"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGC</genome_strand>
        <mrna_strand>GGCTACTGCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E548242" ref_strand="+" ref_description="SGN-E548242 [TUS-59-G8]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaagtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactgggaagggtccattggagaaatcttgccgacacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttgttcccggaaaatgaagtttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45437" g_stop="46233" g_length="797"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="797" r_length="797" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E548242" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>797</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E548242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45437" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAG-AACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGGAAGGGTCCATTGGAGAAATCTTGCCGA-CACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E739894" ref_strand="+" ref_description="SGN-E739894 [LC19BA11]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaacttttgttccggaaagtgaagtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45437" g_stop="46233" g_length="797"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="797" r_length="797" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E739894" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>797</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E739894" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45437" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTTGTTCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E728366" ref_strand="+" ref_description="SGN-E728366 [LA17CD06]">
      <seq>gctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaaccacaacgccctgggcttttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46523"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45437" g_stop="46223" g_length="787"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="788" r_length="788" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E728366" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>787</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E728366" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45437" e_stop="46223"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACG-CCTGGGCTTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACCACAACGCCCTGGGCTTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339853" ref_strand="+" ref_description="SGN-E339853 [cTOF-3-M3]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46443"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45437" g_stop="46143" g_length="707"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="707" r_length="707" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339853" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>707</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339853" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45437" e_stop="46143"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGG</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345046" ref_strand="+" ref_description="SGN-E345046 [cTOF-22-H16]">
      <seq>gctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45137" stop="46365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45437" g_stop="46065" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="629" r_length="629" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345046" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345046" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45437" e_stop="46065"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>GCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348560" ref_strand="+" ref_description="SGN-E348560 [cTOF-30-L20]">
      <seq>ctgcttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgatccacttttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaagggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacacgcctgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45138" stop="46508"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45438" g_stop="46208" g_length="771"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="773" r_length="773" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348560" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>771</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348560" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45438" e_stop="46208"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCAC-TTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAA-GGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</genome_strand>
        <mrna_strand>CTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGATCCACTTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAAC-ACGCCTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E345111" ref_strand="+" ref_description="SGN-E345111 [cTOF-22-H17]">
      <seq>ctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45138" stop="46423"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45438" g_stop="46123" g_length="686"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="686" r_length="686" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E345111" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>686</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E345111" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45438" e_stop="46123"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</genome_strand>
        <mrna_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284990" ref_strand="+" ref_description="SGN-E284990 [cLER-19-M23]">
      <seq>ctgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctctaggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggggcaaagctggatctcaaatttttagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45138" stop="46186"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45438" g_stop="45886" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284990" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284990" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45438" e_stop="45886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>CTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTAGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGGGCAAAGCTGGATCTCAAATTTTTAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283467" ref_strand="+" ref_description="SGN-E283467 [cLER-12-D12]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45139" stop="46284"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45439" g_stop="45984" g_length="546"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="546" r_length="546" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E283467" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>546</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283467" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45439" e_stop="45984"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282384" ref_strand="+" ref_description="SGN-E282384 [cLER-18-O16]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45139" stop="46210"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45439" g_stop="45910" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="472" r_length="472" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282384" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282384" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45439" e_stop="45910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATT</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279010" ref_strand="+" ref_description="SGN-E279010 [cLER-2-H24]">
      <seq>tgcttctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45139" stop="46177"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45439" g_stop="45877" g_length="439"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="439" r_length="439" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279010" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>439</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279010" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45439" e_stop="45877"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTG</genome_strand>
        <mrna_strand>TGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730891" ref_strand="+" ref_description="SGN-E730891 [LA25CB02]">
      <seq>cccgtaaagataatggctagcttctactatggctctttcctcccctattttcgccggtaaggcggagaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttcttcgagcttttggcacgtaacggtgttaagtttggcgaagctgtatggttcaaagctgcatctcaaattttcagcgagggcggacttgactacttgggaaaccctactttggttcatgcaccaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45127" stop="46440"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45440" g_stop="46140" g_length="701"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="720" r_length="701" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730891" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>701</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45440" e_stop="46140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCAC</genome_strand>
        <mrna_strand>GCTTCTACTATGGCTCTTTCCTCCCCTATTTTCGCCGGTAAGGCGGAGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCTTCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGCGAAGCTGTATGGTTCAAAGCTGCATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTACTTTGGTTCATGCACCAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E283874" ref_strand="+" ref_description="SGN-E283874 [cLER-13-M17]">
      <seq>ttctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45142" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45442" g_stop="45924" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="483" r_length="483" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E283874" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E283874" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45442" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285240" ref_strand="+" ref_description="SGN-E285240 [cLER-20-H12]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaagcttttgctgagctcaaagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45143" stop="46372"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45443" g_stop="46072" g_length="630"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="630" r_length="630" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285240" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>630</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285240" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45443" e_stop="46072"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTG</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAAGCTTTTGCTGAGCTCAAAGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297209" ref_strand="+" ref_description="SGN-E297209 [cLET-29-H8]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45143" stop="46248"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45443" g_stop="45948" g_length="506"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="506" r_length="506" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297209" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>506</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45443" e_stop="45948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291513" ref_strand="+" ref_description="SGN-E291513 [cLET-6-G11]">
      <seq>tctactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45143" stop="46211"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45443" g_stop="45911" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="469" r_length="469" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291513" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291513" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45443" e_stop="45911"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTT</genome_strand>
        <mrna_strand>TCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E705100" ref_strand="+" ref_description="SGN-E705100 [FA26AF09]">
      <seq>ctacaatggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccgggaaagtgagtgcaacaaactgttctccaattagtgtgagattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45144" stop="46573"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45444" g_stop="46273" g_length="830"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="831" r_length="831" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E705100" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>830</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E705100" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45444" e_stop="46273"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCC-GGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTAT</genome_strand>
        <mrna_strand>CTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284583" ref_strand="+" ref_description="SGN-E284583 [cLES-3-E1]">
      <seq>tactatggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttttgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctgctatggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaaacgatgatactggtgcagaccctgttgattacagatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttctggcacgtaacggtgttaaagtttggtgaagctgtatggttcaaagctggatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45145" stop="46143"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45445" g_stop="45843" g_length="399"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="400" r_length="400" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284583" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284583" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45445" e_stop="45843"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTT-AAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATC</genome_strand>
        <mrna_strand>TACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTTTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTGCTATGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAACGATGATACTGGTGCAGACCCTGTTGATTACAGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTCTGGCACGTAACGGTGTTAAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342870" ref_strand="+" ref_description="SGN-E342870 [cTOF-7-N24]">
      <seq>accatggctctttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgagggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacatgcttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45146" stop="46496"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45446" g_stop="46206" g_length="761"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="761" r_length="761" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342870" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>761</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342870" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45446" e_stop="46206"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGA-GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</genome_strand>
        <mrna_strand>ACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAAC-ATGCTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E200537" ref_strand="+" ref_description="SGN-E200537 [cLEB-8-P15]">
      <seq>gcacgagctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaaagtgtgttgatgggagccgttgagggtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45155" stop="46260"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45448" g_stop="45960" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="513" r_length="513" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E200537" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>513</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E200537" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45448" e_stop="45960"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTA</genome_strand>
        <mrna_strand>GCACGAGCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAAGTGTGTTGATGGGAGCCGTTGAGGGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E729778" ref_strand="+" ref_description="SGN-E729778 [LA22AC11]">
      <seq>atggctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45149" stop="46527"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45449" g_stop="46227" g_length="779"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="779" r_length="779" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E729778" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>779</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729778" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45449" e_stop="46227"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</genome_strand>
        <mrna_strand>ATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343010" ref_strand="+" ref_description="SGN-E343010 [cTOF-11-G7]">
      <seq>atggctctttcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45149" stop="46339"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45449" g_stop="46039" g_length="591"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="591" r_length="591" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E343010" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>591</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343010" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45449" e_stop="46039"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</genome_strand>
        <mrna_strand>ATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E328563" ref_strand="+" ref_description="SGN-E328563 [cTOC-23-B1]">
      <seq>ggctctttcctcctctaccttcgccggaaagacggtgaaactcgtaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45151" stop="46245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45451" g_stop="45945" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E328563" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>495</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328563" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45451" e_stop="45945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</genome_strand>
        <mrna_strand>GGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGTACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346321" ref_strand="+" ref_description="SGN-E346321 [cTOF-23-H22]">
      <seq>gctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45152" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45452" g_stop="46066" g_length="615"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="615" r_length="615" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346321" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>615</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346321" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45452" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>GCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E730266" ref_strand="+" ref_description="SGN-E730266 [LA23CD08]">
      <seq>ctctttcctcctctaccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggaatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggagattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcacatgggccatgcttggtgctcttggatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45153" stop="46074"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45453" g_stop="45774" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="322" r_length="322" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E730266" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730266" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45453" e_stop="45774"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATG</genome_strand>
        <mrna_strand>CTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGAATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGAGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCACATGGGCCATGCTTGGTGCTCTTGGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288710" ref_strand="+" ref_description="SGN-E288710 [cLES-8-F3]">
      <seq>tttcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45156" stop="46179"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45456" g_stop="45879" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="424" r_length="424" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288710" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45456" e_stop="45879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGG</genome_strand>
        <mrna_strand>TTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278222" ref_strand="+" ref_description="SGN-E278222 [cLER-9-G19]">
      <seq>tcttcctctacatttgccggaaaggcggttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45158" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45458" g_stop="45924" g_length="467"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="467" r_length="467" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E278222" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278222" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45458" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294214" ref_strand="+" ref_description="SGN-E294214 [cLET-14-E5]">
      <seq>tcctcctctactttcgccggtaaggcggtgaaactctcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45158" stop="46102"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45458" g_stop="45802" g_length="345"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="345" r_length="345" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294214" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>345</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45458" e_stop="45802"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAAC</genome_strand>
        <mrna_strand>TCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279709" ref_strand="+" ref_description="SGN-E279709 [cLER-5-L7]">
      <seq>accttcgccggaaagacggagaaactcgcaccatcttcttctgaaatcagcggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45167" stop="46013"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45467" g_stop="45713" g_length="247"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="247" r_length="247" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279709" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>247</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279709" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45467" e_stop="45713"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCG</genome_strand>
        <mrna_strand>ACCTTCGCCGGAAAGACGGAGAAACTCGCACCATCTTCTTCTGAAATCAGCGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279462" ref_strand="+" ref_description="SGN-E279462 [cLER-11-P12]">
      <seq>ccttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatgggatggtcctgaccgcgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45168" stop="46186"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45468" g_stop="45886" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="419" r_length="419" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279462" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>419</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45468" e_stop="45886"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</genome_strand>
        <mrna_strand>CCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGGATGGTCCTGACCGCGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279801" ref_strand="+" ref_description="SGN-E279801 [cLER-8-I4]">
      <seq>ttcgccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45170" stop="46115"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45470" g_stop="45815" g_length="346"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="346" r_length="346" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279801" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>346</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279801" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45470" e_stop="45815"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTG</genome_strand>
        <mrna_strand>TTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E731539" ref_strand="+" ref_description="SGN-E731539 [LA27BG09]">
      <seq>gccggaaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactagtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaacctgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45173" stop="46554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45473" g_stop="46254" g_length="782"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="782" r_length="782" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E731539" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>782</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E731539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45473" e_stop="46254"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCT</genome_strand>
        <mrna_strand>GCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTAGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAACCTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280209" ref_strand="+" ref_description="SGN-E280209 [cLEL-7-J7](-)">
      <seq>agctttgaaccatacagcttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccaagagcaccaagcatggcccatctgcaatgaataacctccaactcacgattcttagcgaatgtttcagggtcagctgaaagcccagcagtgtcccatccgtaatcaccagggaactcaccagtcaaatagcttggggcttccccggagaatggtcccaagtacttaacacggtcaggaccataccatgggctaccagaggaagctggcttgggcttggcagcagtcttgcgcattgtaattctcccatttcccctcatttcagaagaagatggtgcgagtttcaccgtctttccgctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46138" stop="45175"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45838" g_stop="45475" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="364" r_length="364" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E280209" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>364</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45838" e_stop="45475"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCG</genome_strand>
        <mrna_strand>AGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGATTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGGGCTTCCCCGGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTGCGCATTGTAATTCTCCCATTTCCCCTCATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735999" ref_strand="+" ref_description="SGN-E735999 [LC03DH09]">
      <seq>cgatacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45180" stop="46572"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45478" g_stop="46272" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="794" r_length="794" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735999" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735999" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45478" e_stop="46272"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTA</genome_strand>
        <mrna_strand>CGATACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAAC-ACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E315322" ref_strand="+" ref_description="SGN-E315322 [cTOA-24-N1]">
      <seq>aaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttncagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacacaacgcctgggcttttgcacaaactttgntcccggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45178" stop="46532"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45478" g_stop="46232" g_length="755"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="753" r_length="753" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E315322" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>755</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E315322" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45478" e_stop="46232"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAA</genome_strand>
        <mrna_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTNCAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAAC-ACAACGCCTGGGCTTTTG-CACAAACTTTGNTCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324472" ref_strand="+" ref_description="SGN-E324472 [cTOC-6-N3]">
      <seq>aaagacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45178" stop="46249"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45478" g_stop="45949" g_length="472"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="472" r_length="472" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E324472" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45478" e_stop="45949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</genome_strand>
        <mrna_strand>AAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735933" ref_strand="+" ref_description="SGN-E735933 [LC03CH09]">
      <seq>atacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttaactttgtgagagatgaatctgtagaaggggtcagttttttaagcattctgggttatggggttcagtacaagattattgtaaattggtttggattaattaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45180" stop="46686"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45480" g_stop="46392" g_length="913"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="913" r_length="913" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735933" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>913</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45480" e_stop="46392"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTAT-GGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTT</genome_strand>
        <mrna_strand>ATACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAACTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTT-AAGCATTCTGGGTTATGGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E714647" ref_strand="+" ref_description="SGN-E714647 [FB12AB10]">
      <seq>agacggtgaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaagggtcagttttttaaagcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45180" stop="46629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45480" g_stop="46329" g_length="850"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="850" r_length="850" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E714647" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>850</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E714647" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45480" e_stop="46329"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCAT</genome_strand>
        <mrna_strand>AGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAAGGGTCAGTTTTTTAAAGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296577" ref_strand="+" ref_description="SGN-E296577 [cLET-39-E15]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccanaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45185" stop="46413"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45486" g_stop="46114" g_length="629"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="629" r_length="629" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296577" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296577" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45486" e_stop="46114"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTT</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCANAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291459" ref_strand="+" ref_description="SGN-E291459 [cLET-2-B21]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45185" stop="46267"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45486" g_stop="45967" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="482" r_length="482" r_score="0.936"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291459" ref_strand="+">
        <total_alignment_score>0.936</total_alignment_score>
        <cumulative_length_of_scored_exons>482</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291459" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45486" e_stop="45967"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATT</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293127" ref_strand="+" ref_description="SGN-E293127 [cLET-12-H3]">
      <seq>ttaaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45185" stop="46213"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45486" g_stop="45913" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293127" ref_strand="+">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293127" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45486" e_stop="45913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTG</genome_strand>
        <mrna_strand>TTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293157" ref_strand="+" ref_description="SGN-E293157 [cLET-12-B12]">
      <seq>taaactctccccatcttcttctgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45188" stop="46043"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45487" g_stop="45743" g_length="257"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="257" r_length="257" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293157" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>257</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293157" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45487" e_stop="45743"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATT</genome_strand>
        <mrna_strand>TAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E324546" ref_strand="+" ref_description="SGN-E324546 [cTOC-9-D1]">
      <seq>gaaactcgcaccatcttcttctgaaatcagtggaaatgggagaattacaatgaggaacactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattactgatgggacactgctgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45187" stop="45989"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45487" g_stop="45689" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="203" r_length="203" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E324546" ref_strand="+">
        <total_alignment_score>0.966</total_alignment_score>
        <cumulative_length_of_scored_exons>203</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45487" e_stop="45689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGC</genome_strand>
        <mrna_strand>GAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAACACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACTGATGGGACACTGCTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348869" ref_strand="+" ref_description="SGN-E348869 [cTOF-29-L22]">
      <seq>ttcttctgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaaggttgttgatccacttntaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagcctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacacaacgcctgggcctttgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45202" stop="46513"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45502" g_stop="46213" g_length="712"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="714" r_length="714" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348869" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>712</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348869" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45502" e_stop="46213"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTG-AGGTTGTTGATCCACTT-TACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAG-CTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCC</genome_strand>
        <mrna_strand>TTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAAGGTTGTTGATCCACTTNTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAAC-ACAACGCCTGGGCCTTTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E698581" ref_strand="+" ref_description="SGN-E698581 [FA06DE05]">
      <seq>tcttctgaaaccagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcactaagaaccgcgagttggaggttattcattgccgatgggccatgcttgctgctcttggatgtgttttcccccagattttggcacgtaacggagttaagcttggtgaagctgcatggctaaaagctggatctcaaattttcagcgaggatggacttgactacttgggaaaccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45203" stop="46185"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45503" g_stop="45885" g_length="383"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="383" r_length="383" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E698581" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>383</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698581" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45503" e_stop="45885"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCC</genome_strand>
        <mrna_strand>TCTTCTGAAACCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCACTAAGAACCGCGAGTTGGAGGTTATTCATTGCCGATGGGCCATGCTTGCTGCTCTTGGATGTGTTTTCCCCCAGATTTTGGCACGTAACGGAGTTAAGCTTGGTGAAGCTGCATGGCTAAAAGCTGGATCTCAAATTTTCAGCGAGGATGGACTTGACTACTTGGGAAACCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E278398" ref_strand="+" ref_description="SGN-E278398 [cLEL-2-F16](-)">
      <seq>accattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctccaactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcaccaggaaactcaccggtcaagtagcttggggattccccagagaatggtcccaagtacttaacacggtcaggaccgtaccatgggctaccagaggaggctggcttggccttggtagcagtcttcctcatggtgactctcccatttccggtgatttcagaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46105" stop="45205"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45805" g_stop="45505" g_length="301"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="301" r_length="301" r_score="0.934"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E278398" ref_strand="+">
        <total_alignment_score>0.934</total_alignment_score>
        <cumulative_length_of_scored_exons>301</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278398" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45805" e_stop="45505"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAA</genome_strand>
        <mrna_strand>ACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTCTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E711755" ref_strand="+" ref_description="SGN-E711755 [FB02DE09]">
      <seq>tgaaatnagtggaaatgggagaattataaccaggaagactgctgccaagcccaagcctgcctcctctggtagcccatggtacggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcagaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcattttggtgaggttgttgatcccctttatcctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45208" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45508" g_stop="46041" g_length="534"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="534" r_length="534" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E711755" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>534</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E711755" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45508" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>TGAAATNAGTGGAAATGGGAGAATTATAACCAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCAGAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCATTTTGGTGAGGTTGTTGATCCCCTTTATCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295571" ref_strand="+" ref_description="SGN-E295571 [cLET-23-B16]">
      <seq>tgaaatcaccggaaatgggagagtcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcatttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45208" stop="46212"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45508" g_stop="45912" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="405" r_length="405" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295571" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295571" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45508" e_stop="45912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTT</genome_strand>
        <mrna_strand>TGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E320634" ref_strand="+" ref_description="SGN-E320634 [cTOB-27-E1]">
      <seq>tgaaatcagtggaaatgggagaattacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatgggcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45208" stop="46085"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45508" g_stop="45785" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="278" r_length="278" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E320634" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>278</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E320634" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45508" e_stop="45785"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCG</genome_strand>
        <mrna_strand>TGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGGCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291730" ref_strand="+" ref_description="SGN-E291730 [cLET-6-N15]">
      <seq>ggaaatgggagattcaccatgaggaaaactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggggagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45218" stop="46073"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45518" g_stop="45773" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="256" r_length="256" r_score="0.938"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291730" ref_strand="+">
        <total_alignment_score>0.938</total_alignment_score>
        <cumulative_length_of_scored_exons>256</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291730" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45518" e_stop="45773"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAT</genome_strand>
        <mrna_strand>GGAAATGGGAGATTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGGGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288105" ref_strand="+" ref_description="SGN-E288105 [cLES-7-K3]">
      <seq>tacaatgaggaagactgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattaccgatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtggtttccccgagcttttggcacgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45232" stop="46100"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45532" g_stop="45800" g_length="269"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="269" r_length="269" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288105" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>269</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288105" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45532" e_stop="45800"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTA</genome_strand>
        <mrna_strand>TACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACCGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGGTTTCCCCGAGCTTTTGGCACGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340029" ref_strand="+" ref_description="SGN-E340029 [cTOF-3-K2]">
      <seq>tgaggaagactgctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggccttcgccacaaactttgtcccccggaagtgaagtttttaaaaaattagttgtttgctaattgtaaattaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45237" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45537" g_stop="46233" g_length="697"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="697" r_length="697" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340029" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>697</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45537" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TGAGGAAGACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCCGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288106" ref_strand="+" ref_description="SGN-E288106 [cLES-7-K5]">
      <seq>aactgctgccaagcccaatccagcttcctctggtaacccatggtatggggctgaccgtgttaagtacttgagcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactggtgggctctcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcatatgggccatgcttggtgctcttggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45245" stop="46073"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45544" g_stop="45773" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="230" r_length="230" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288106" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>230</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288106" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45544" e_stop="45773"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGAT</genome_strand>
        <mrna_strand>AACTGCTGCCAAGCCCAATCCAGCTTCCTCTGGTAACCCATGGTATGGGGCTGACCGTGTTAAGTACTTGAGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGGTGGGCTCTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCATATGGGCCATGCTTGGTGCTCTTGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E346391" ref_strand="+" ref_description="SGN-E346391 [cTOF-23-E8]">
      <seq>tgctgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacanactttgttcccggaaagtgagtgcaacaaactgttctccaattagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45247" stop="46563"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45547" g_stop="46263" g_length="717"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="717" r_length="717" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E346391" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>717</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E346391" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45547" e_stop="46263"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGT</genome_strand>
        <mrna_strand>TGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACANACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297825" ref_strand="+" ref_description="SGN-E297825 [cLET-38-B4]">
      <seq>gctaccaaggccaagccagcctcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45248" stop="46411"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45548" g_stop="46111" g_length="564"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="564" r_length="564" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297825" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297825" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45548" e_stop="46111"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATG</genome_strand>
        <mrna_strand>GCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295644" ref_strand="+" ref_description="SGN-E295644 [cLET-25-E14]">
      <seq>tgccaagcccaagccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45250" stop="46341"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45550" g_stop="46041" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295644" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295644" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45550" e_stop="46041"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</genome_strand>
        <mrna_strand>TGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342809" ref_strand="+" ref_description="SGN-E342809 [cTOF-7-L3]">
      <seq>ggcccaagcctgcctcctctggtagccccatggtaccggtcctgaccgtgttaagtacttgggcccacttctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacacggctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaacggcagacttgctatgttctccatgtttggattctttgttcaagctattgtcactggaaagggtccattggagaatcttgccgaccacattgctgacccagttaacaacaacgcctgggcctttgccacaaactttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45290" stop="46523"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45555" g_stop="46223" g_length="669"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="672" r_length="672" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342809" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>669</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342809" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45555" e_stop="46223"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCCCAAGCCAGCTTCCTCTGGTAGC-CCATGGTA-TGGTCCTGACCGTGTTAAGTACTTGGGCCCA-TTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTG</genome_strand>
        <mrna_strand>GGCCCAAGCCTGCCTCCTCTGGTAGCCCCATGGTACCGGTCCTGACCGTGTTAAGTACTTGGGCCCACTTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACGGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316960" ref_strand="+" ref_description="SGN-E316960 [cTOA-27-D10]">
      <seq>ccagcttcctctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttccaagctggatctccaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagcccgttgagggttaccgtattgctggtgggcctcttggtgagggtgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagaccagaggcttttgctgagctcaaggtgaagagatcaagaatggtagacttgctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45263" stop="46401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45563" g_stop="46101" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="538" r_length="538" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E316960" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E316960" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45563" e_stop="46101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAG-CCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTAT</genome_strand>
        <mrna_strand>CCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCCAAGCTGGATCTCCAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGGTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGA-CCAGAGGCTTTTGCTGAGCTCAAGGTGAA-GAGATCAAGAATGGTAGACTTGCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348417" ref_strand="+" ref_description="SGN-E348417 [cTOF-27-L22]">
      <seq>gctggtagcccatggtatggccctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgcgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattatcagcgagggcggacttgactacttgggaaaccctagttcggttcatgcacaaagcatttcggctatttgggcttgccaagttgagttgatgggagccagggagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctgtgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattggtgacccagctaacaacaacgcctgggcttttgccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45273" stop="46515"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45572" g_stop="46215" g_length="644"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="644" r_length="644" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348417" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>644</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348417" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45572" e_stop="46215"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCAC</genome_strand>
        <mrna_strand>GCTGGTAGCCCATGGTATGGCCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGCGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTATCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTCGGTTCATGCACAAAGCATTTCGGCTATTTGGGCTTGCCAAGTTGAGTTGATGGGAGCCAGGGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTGTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGGTGACCCAGCTAACAACAACGCCTGGGCTTTTGCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284084" ref_strand="+" ref_description="SGN-E284084 [cLER-13-M10]">
      <seq>tctggtagcccatggtatggtcctgaccgtgttaagtacttgggaccattctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45272" stop="46405"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45572" g_stop="46105" g_length="534"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="534" r_length="534" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284084" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>534</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284084" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45572" e_stop="46105"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTC</genome_strand>
        <mrna_strand>TCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E288966" ref_strand="+" ref_description="SGN-E288966 [cLES-17-O22]">
      <seq>tggtagcccatggcatggacctgaccgagtttagctcttgggcccattctctggtgaatcaccaaactatttgactggtgagttccctgctgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttgaaggttattcattgcagatgggccatgcttggtgctcttggatgtgtgttccccgagcttatagcacgtaacggcgttaagtttggtgaaactgtatgggtcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctactttggttcatgcacaaagcattttggctatttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45274" stop="46224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45574" g_stop="45924" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E288966" ref_strand="+">
        <total_alignment_score>0.954</total_alignment_score>
        <cumulative_length_of_scored_exons>351</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E288966" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45574" e_stop="45924"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</genome_strand>
        <mrna_strand>TGGTAGCCCATGGCATGGACCTGACCGAGTTTAGCTCTTGGGCCCATTCTCTGGTGAATCACCAAACTATTTGACTGGTGAGTTCCCTGCTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGAAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTGTTCCCCGAGCTTATAGCACGTAACGGCGTTAAGTTTGGTGAAACTGTATGGGTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTACTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E540409" ref_strand="+" ref_description="SGN-E540409 [TUS-60-K19](-)">
      <seq>tagcccatggtatgtccctgaccgtgttaagtacttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagcattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45277" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45577" g_stop="46416" g_length="840"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="841" r_length="841" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E540409" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>840</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E540409" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45577" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAG-ATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>TAGCCCATGGTATGTCCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGCATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318555" ref_strand="+" ref_description="SGN-E318555 [cTOB-10-N16]">
      <seq>gtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45291" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45591" g_stop="46066" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="476" r_length="476" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318555" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>476</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45591" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>GTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318482" ref_strand="+" ref_description="SGN-E318482 [cTOB-10-N20]">
      <seq>gtcctgaccgtgttaagtacttgggaccattctccggggaagccccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45291" stop="46365"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45591" g_stop="46065" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="475" r_length="475" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318482" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318482" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45591" e_stop="46065"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</genome_strand>
        <mrna_strand>GTCCTGACCGTGTTAAGTACTTGGGACCATTCTCCGGGGAAGCCCCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280544" ref_strand="+" ref_description="SGN-E280544 [cLER-1-E4]">
      <seq>ttgggcccattctctggtgaatcaccaagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45311" stop="46542"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45611" g_stop="46242" g_length="632"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="630" r_length="630" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280544" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>632</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280544" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45611" e_stop="46242"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCA</genome_strand>
        <mrna_strand>TTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGC--TTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292879" ref_strand="+" ref_description="SGN-E292879 [cLET-11-F15]">
      <seq>tctctggggaatccccaagctacttgaccggtgagtttcctggtgattacggatgggacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggaaaaccttgctgaccatctcgctgatccagtcaataacaatgcttgggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45321" stop="46506"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45621" g_stop="46206" g_length="586"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="586" r_length="586" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E292879" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>586</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292879" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45621" e_stop="46206"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGC</genome_strand>
        <mrna_strand>TCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAAAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E322463" ref_strand="+" ref_description="SGN-E322463 [cTOB-26-A20]">
      <seq>aatactcatatatattattatgttcttgtaatttacaattagcaaacaactaattttttaaaaacttcactttccggggacaaagtttgtggcgaaggcccaagcattgttattgactggatcagcgagatggtcagcaaggttctccaatggaccctttccggtgacgatagcttgaacaaagaatccgaacatggagaacatagcaagtctaccattcttgatctcttttaccttgagctcagcaaaagcctctgggtcatcagcaaggcccagtgggtcaaagctaccaccagggtagagtgggtcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccagatagccaaaatgctttgtgcatggaccaagcttgggtttcccaagtagtcaagtccaccctcgctgaaaatttgtgatccagccttgaaccatacagcttcaccgaacttaacaccattacgggccaaaagctcggggaatacacatccaagagcaccaagcatggcccatctacaatgaataacctcccactcacggttcttagcgaatgtttcagggtcagctgaaagtccagcagtgtcccatccgtaatcacccagaaactcaccggtcaagtagcttggggattccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46539" stop="45327"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46237" g_stop="45627" g_length="611"/>
          <reference_exon_boundary r_type="cDNA" r_start="67" r_stop="677" r_length="611" r_score="0.931"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E322463" ref_strand="+">
        <total_alignment_score>0.931</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322463" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46237" e_stop="45627"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCAC</genome_strand>
        <mrna_strand>TCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCCACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCCAGAAACTCACCGGTCAAGTAGCTTGGGGATTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318420" ref_strand="+" ref_description="SGN-E318420 [cTOB-10-A10]">
      <seq>caagctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctgtgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45336" stop="46432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45636" g_stop="46132" g_length="497"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="497" r_length="497" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E318420" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>497</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318420" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45636" e_stop="46132"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</genome_strand>
        <mrna_strand>CAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTGTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E326972" ref_strand="+" ref_description="SGN-E326972 [cTOC-18-E1]">
      <seq>gctatttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtggggcctcttggtgaggttgttgatccactttanccctggtggtagctttgacccattngggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgntctccatgtttggattctttgttcaagctattgtcaccggaaagggt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45339" stop="46450"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45639" g_stop="46150" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="515" r_length="515" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E326972" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E326972" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45639" e_stop="46150"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGT-GGGCCTCTTGGTGAGGTTGTTGATCCACTTTA-CCCTGGTGGTAGCTTTGACCCATT-GGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGT</genome_strand>
        <mrna_strand>GCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGGCCTCTTGGTGAGGTTGTTGATCCACTTTANCCCTGGTGGTAGCTTTGACCCATTNGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGNTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E338546" ref_strand="+" ref_description="SGN-E338546 [cTOE-15-E13]">
      <seq>tttgactggtgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45343" stop="46366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45643" g_stop="46066" g_length="424"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="424" r_length="424" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E338546" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E338546" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45643" e_stop="46066"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</genome_strand>
        <mrna_strand>TTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734771" ref_strand="+" ref_description="SGN-E734771 [LB13CB12]">
      <seq>tgagttccctggtgattacggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45352" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45652" g_stop="46415" g_length="764"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="764" r_length="764" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734771" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>764</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734771" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45652" e_stop="46415"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAA</genome_strand>
        <mrna_strand>TGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E735061" ref_strand="+" ref_description="SGN-E735061 [LB14BC12]">
      <seq>cggatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45370" stop="46699"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45670" g_stop="46399" g_length="730"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="728" r_length="728" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E735061" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>730</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E735061" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45670" e_stop="46399"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTG</genome_strand>
        <mrna_strand>CGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCT-GGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGT-AGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335509" ref_strand="+" ref_description="SGN-E335509 [cTOE-2-I4]">
      <seq>gatgggacactgctgggctttcagctgaccctgaaacattcgctaagaatcgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45372" stop="46423"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45672" g_stop="46123" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="452" r_length="452" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E335509" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E335509" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45672" e_stop="46123"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</genome_strand>
        <mrna_strand>GATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAATCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E335462" ref_strand="+" ref_description="SGN-E335462 [cTOE-2-C11]">
      <seq>gacactgctggactttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgtagatgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaccttgctgaccatctcgctgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45377" stop="46482"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45677" g_stop="46183" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="0.947"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E335462" ref_strand="+">
        <total_alignment_score>0.947</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E335462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45677" e_stop="46183"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGAC</genome_strand>
        <mrna_strand>GACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371057" ref_strand="+" ref_description="SGN-E371057 [TUS-29-H5]">
      <seq>ttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacatcgcctgggcttttgccacacactttgttcccggaaagtgagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45391" stop="46539"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45691" g_stop="46233" g_length="543"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="543" r_length="543" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E371057" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E371057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45691" e_stop="46233"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAA</genome_strand>
        <mrna_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACATCGCCTGGGCTTTTGCCACACACTTTGTTCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E280394" ref_strand="+" ref_description="SGN-E280394 [cLER-1-H11]">
      <seq>ttcagctgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45391" stop="46433"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45691" g_stop="46133" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E280394" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>443</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280394" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45691" e_stop="46133"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTA</genome_strand>
        <mrna_strand>TTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296811" ref_strand="+" ref_description="SGN-E296811 [cLET-26-D3]">
      <seq>agctgaccctgaaacattcgctaataaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45394" stop="46367"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45694" g_stop="46067" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="374" r_length="374" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296811" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>374</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45694" e_stop="46067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</genome_strand>
        <mrna_strand>AGCTGACCCTGAAACATTCGCTAATAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E293315" ref_strand="+" ref_description="SGN-E293315 [cLET-18-N11]">
      <seq>tgaccctgaaacattcgctaagaaccgtgagttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45397" stop="46508"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45697" g_stop="46208" g_length="512"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="512" r_length="512" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E293315" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293315" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45697" e_stop="46208"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</genome_strand>
        <mrna_strand>TGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E548221" ref_strand="+" ref_description="SGN-E548221 [TUS-59-D7](-)">
      <seq>agaaccgtgagttgaaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacacagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45417" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45717" g_stop="46410" g_length="694"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="696" r_length="696" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E548221" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>694</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E548221" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45717" e_stop="46410"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGT-AACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACA-AGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATT</genome_strand>
        <mrna_strand>AGAACCGTGAGTTGAAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACACAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E317310" ref_strand="-" ref_description="SGN-E317310 [cTOA-28-L8]">
      <seq>agttggaggttattcattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcaaaaaaaaaaaaaaaaaaactcaagactagttctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45426" stop="46694"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45726" g_stop="46393" g_length="668"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="668" r_length="668" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="669" polyA_stop="688"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E317310" ref_strand="-">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>668</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E317310" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45726" e_stop="46393"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTC</genome_strand>
        <mrna_strand>AGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E371056" ref_strand="+" ref_description="SGN-E371056 [TUS-29-H5](-)">
      <seq>gttggaggttatttattgcagatgggccatgcttggtgctcttggatgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccaaaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaacttttttccaattagtgtgagattatgagtttttagctttgtgaaaaatgaatctgtaaaaggggtcagttttttaaagcattttgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcccaagcaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45427" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45727" g_stop="46407" g_length="681"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="681" r_length="681" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="682" polyA_stop="707"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E371056" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>681</cumulative_length_of_scored_exons>
        <coverage percentage="0.963" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E371056" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45727" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>GTTGGAGGTTATTTATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAAAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTTTTTTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAAAAATGAATCTGTAAAAGGGGTCAGTTTTTTAAAGCATTTTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCCCAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E316933" ref_strand="+" ref_description="SGN-E316933 [cTOA-27-J9]">
      <seq>ttattcattgcagatgggccatgcttggtgctcttggatgtgtttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45435" stop="46228"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45735" g_stop="45928" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="195" r_length="195" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E316933" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>194</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E316933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45735" e_stop="45928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTG-TTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGC</genome_strand>
        <mrna_strand>TTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282204" ref_strand="+" ref_description="SGN-E282204 [cLES-4-C15]">
      <seq>tgggccatgcttggtgctcttggatgtgtattccccgagcttttggcccgtaatggtgttaagttcggtgaagctgtatggttcaaggctggatcacaaattttcagcgagggtggacttgactacttgggaaacccaagcttggtccatgcacaaagcattttggctatctgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgacccactctaccctggtggtagctttgacccactgggccttgctgatgacccagaggcttttgctgagctcaaggtaaaagagatcaagaatggtagacttgctatgttctccatgttcggattctttgttcaagctatcgtcaccggaaagggtccattggagaaacttgctgaccatcttgctgatccagtcaataacaatgcttgggcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45449" stop="46508"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45749" g_stop="46208" g_length="460"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="460" r_length="460" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282204" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282204" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45749" e_stop="46208"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTT</genome_strand>
        <mrna_strand>TGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAAACTTGCTGACCATCTTGCTGATCCAGTCAATAACAATGCTTGGGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E277134" ref_strand="+" ref_description="SGN-E277134 [cLEL-3-E14](-)">
      <seq>acaataagatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcaaaggctcaggcgttgttgttaactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccaccagcaatacggtaaccctcaacggctcccatcaacacaacttggcaagcccaaatagccaaaatgctttgtgcatgaaccaaactagggtttcccaagtagtcaagtccgccctcgctgaaaatttgagatccagctttgaaccatacaccttcaccaaacttaacaccgttacgtgccaaaagctcggggaaaacacatccctcgtgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46539" stop="45470"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46237" g_stop="45764" g_length="474"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="517" r_length="475" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E277134" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="0.917" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277134" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46237" e_stop="45764"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACAT-CCAAGAGC</genome_strand>
        <mrna_strand>TCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCTCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACACCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCCTCGTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286976" ref_strand="-" ref_description="SGN-E286976 [cLES-6-E22]">
      <seq>tgtgttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaaaaaaaaaaaaaaaaactcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45473" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45773" g_stop="46407" g_length="635"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="635" r_length="635" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="636" polyA_stop="660"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286976" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286976" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45773" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>TGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348163" ref_strand="+" ref_description="SGN-E348163 [cTOF-27-D15]">
      <seq>ttttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45477" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45777" g_stop="46412" g_length="636"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="636" r_length="636" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348163" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348163" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45777" e_stop="46412"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTT</genome_strand>
        <mrna_strand>TTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E285404" ref_strand="-" ref_description="SGN-E285404 [cLER-20-H20]">
      <seq>tttccccgagcttttggcacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggacccgttaagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccaaaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaacttttctccaattagtgtgagattatgagtttttagctttgtgaaaaatgaatctgtaaaaggggtcagttttttaaagcattttgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcccaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45478" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45778" g_stop="46404" g_length="627"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="627" r_length="627" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="628" polyA_stop="663"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E285404" ref_strand="-">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>627</cumulative_length_of_scored_exons>
        <coverage percentage="0.946" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E285404" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45778" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>TTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGACCCGTTAAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAAAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTTTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAAAAATGAATCTGTAAAAGGGGTCAGTTTTTTAAAGCATTTTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCCCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E282968" ref_strand="+" ref_description="SGN-E282968 [cLER-17-C20]">
      <seq>cacgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagttttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45495" stop="46582"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45795" g_stop="46282" g_length="488"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="488" r_length="488" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E282968" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>488</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282968" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45795" e_stop="46282"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTA</genome_strand>
        <mrna_strand>CACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E714326" ref_strand="+" ref_description="SGN-E714326 [FB11AE11]">
      <seq>acgtaacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaatttttaatatcatatttacaatttttcatcttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45496" stop="46744"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45796" g_stop="46450" g_length="655"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="655" r_length="655" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E714326" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>655</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E714326" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45796" e_stop="46450"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCATCTTAAAAGTTATA</genome_strand>
        <mrna_strand>ACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCATCTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E284341" ref_strand="+" ref_description="SGN-E284341 [cLER-16-C5]">
      <seq>aacggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagaatatgagtttttagctttgtgaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45500" stop="46593"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45800" g_stop="46293" g_length="494"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="494" r_length="494" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E284341" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E284341" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45800" e_stop="46293"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGA</genome_strand>
        <mrna_strand>AACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGAATATGAGTTTTTAGCTTTGTGAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727195" ref_strand="+" ref_description="SGN-E727195 [LA14AA10]">
      <seq>cggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcnaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45502" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45802" g_stop="46407" g_length="606"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="606" r_length="606" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="607" polyA_stop="625"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E727195" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E727195" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45802" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>CGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCN</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E347027" ref_strand="+" ref_description="SGN-E347027 [cTOF-25-M16]">
      <seq>cggtgttaagtttggtgaagctgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagtttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45502" stop="46702"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45802" g_stop="46402" g_length="601"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="602" r_length="602" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E347027" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>601</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E347027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45802" e_stop="46402"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAG-TTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAC</genome_strand>
        <mrna_strand>CGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E296627" ref_strand="+" ref_description="SGN-E296627 [cLET-39-N14]">
      <seq>gtgtaaagtttggtgaggctgtgtggttcaaggccggatcccagatcttcagcgagggtggacttgactacttgggcaacccaagcttggttcatgcacaaagcatcttggccatttgggcttgccaagttgtgttgatgggagctgttgaaggttaccgtattgctggtggacctcttggtgaggttgtcgacccactctaccccggtggaagcttcgacccattaggccttgctgaagaccccgaggcatttgctgagctcaaggtaaaggagatcaagaacggtagacttgctatgttctctatgtttggattctttgttcaagccattgttaccggaaaaggtccattggagaaccttgctgatcaccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45504" stop="46479"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45804" g_stop="46179" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E296627" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>376</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E296627" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45804" e_stop="46179"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGC</genome_strand>
        <mrna_strand>GTGTAAAGTTTGGTGAGGCTGTGTGGTTCAAGGCCGGATCCCAGATCTTCAGCGAGGGTGGACTTGACTACTTGGGCAACCCAAGCTTGGTTCATGCACAAAGCATCTTGGCCATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCTGTTGAAGGTTACCGTATTGCTGGTGGACCTCTTGGTGAGGTTGTCGACCCACTCTACCCCGGTGGAAGCTTCGACCCATTAGGCCTTGCTGAAGACCCCGAGGCATTTGCTGAGCTCAAGGTAAAGGAGATCAAGAACGGTAGACTTGCTATGTTCTCTATGTTTGGATTCTTTGTTCAAGCCATTGTTACCGGAAAAGGTCCATTGGAGAACCTTGCTGATCACCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E391241" ref_strand="-" ref_description="SGN-E391241 [TUS-48-N7]">
      <seq>tgtatggttcaaagctggatttcaaatttttagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggccttttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttttccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaacttttttccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattttgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcattttgaaaaaaaaaaaaaaaaaactcgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45523" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45823" g_stop="46398" g_length="576"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="576" r_length="576" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="578" polyA_stop="596"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E391241" ref_strand="-">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>576</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E391241" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45823" e_stop="46398"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTT</genome_strand>
        <mrna_strand>TGTATGGTTCAAAGCTGGATTTCAAATTTTTAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTTTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTTTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTTTTTTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTTTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E339068" ref_strand="+" ref_description="SGN-E339068 [cTOF-6-C3]">
      <seq>tgtatggttcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45523" stop="46446"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45823" g_stop="46146" g_length="324"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="324" r_length="324" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E339068" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>324</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E339068" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45823" e_stop="46146"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAA</genome_strand>
        <mrna_strand>TGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E291236" ref_strand="+" ref_description="SGN-E291236 [cLET-2-F9]">
      <seq>tcaaagctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgctgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgctctgcatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacagcaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45531" stop="46651"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45831" g_stop="46351" g_length="521"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="521" r_length="521" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E291236" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291236" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45831" e_stop="46351"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACA</genome_strand>
        <mrna_strand>TCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGCTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGCTCTGCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAGCAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292044" ref_strand="+" ref_description="SGN-E292044 [cLET-7-N18]">
      <seq>aaagctggatctcaggttttcagcgagggcggacttgactacttgggaaaccctagtttggtcatgcacaaagcattttggctatttgggcttgccaagttggttgatgggagccgtggggttaccgattgctggtgggcctcttgggaggttgtgatccactttaccctggggagctttgacccattggccttgctgaagacccagaggcttttgctggctaaggtgaaggagatcaagaatggagacttgctatgtctacatggtggattctttgttcaagctattgtaccggaaagggcctgtgagaaccttgctaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45533" stop="46520"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45833" g_stop="46220" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="369" r_length="369" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E292044" ref_strand="+">
        <total_alignment_score>0.933</total_alignment_score>
        <cumulative_length_of_scored_exons>388</cumulative_length_of_scored_exons>
        <coverage percentage="1.051" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292044" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45833" e_stop="46220"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACT</genome_strand>
        <mrna_strand>AAAGCTGGATCTCAGGTTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGG-TCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTG-GTTGATGGGAGCCG-TG-GGGTTACCG-ATTGCTGGTGGGCCTCTTGG-GAGGTTG-TGATCCACTTTACCCTGG-GG-AGCTTTGACCCATT-GGCCTTGCTGAAGACCCAGAGGCTTTTGCTG-GCT-AAGGTGAAGGAGATCAAGAATGG-AGACTTGCTATG-TCTACATG-GTGGATTCTTTGTTCAAGCTATTGT-ACCGGAAAGGG-CC-TGTGAGAACCTTG-CTACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734193" ref_strand="+" ref_description="SGN-E734193 [LB12AB04]">
      <seq>ctggatctcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45537" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45837" g_stop="46419" g_length="583"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="583" r_length="583" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734193" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>583</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734193" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45837" e_stop="46419"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATC</genome_strand>
        <mrna_strand>CTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E318674" ref_strand="+" ref_description="SGN-E318674 [cTOB-9-K11]">
      <seq>gatactagacgtaacatttttttctctcaaaaacttcactttccgggaacaaagtttgtggcataggcccaggcgttgttgttatctgggtcagcaatgtggtcggcaagattctccaatggaccctttccagtgacaattgcttgaacaaagaatccaaacatggagatcatagcaagtctgccgttcttgatctccttctccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaatgcttccacctgggctaagtggatcaacatcctcaccaagaggcccaccagcaatacgggatccctcaacggctcccatcatcacaacttggcaagcccaaatagccaaaaagctttgtgcatgaaccaaactagggtttcccaagttgtcaagtccgccctcgctgaatacttgagatcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46539" stop="45538"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46237" g_stop="45838" g_length="400"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="435" r_length="400" r_score="0.940"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E318674" ref_strand="+">
        <total_alignment_score>0.940</total_alignment_score>
        <cumulative_length_of_scored_exons>400</cumulative_length_of_scored_exons>
        <coverage percentage="0.920" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318674" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46237" e_stop="45838"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCA</genome_strand>
        <mrna_strand>TCACTTTCCGGGAACAAAGTTTGTGGCATAGGCCCAGGCGTTGTTGTTATCTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATTGCTTGAACAAAGAATCCAAACATGGAGATCATAGCAAGTCTGCCGTTCTTGATCTCCTTCTCCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAATGCTTCCACCTGGGCTAAGTGGATCAACATCCTCACCAAGAGGCCCACCAGCAATACGGGATCCCTCAACGGCTCCCATCATCACAACTTGGCAAGCCCAAATAGCCAAAAAGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTTGTCAAGTCCGCCCTCGCTGAATACTTGAGATCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E295363" ref_strand="+" ref_description="SGN-E295363 [cLET-23-G14]">
      <seq>tcaaattttcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45544" stop="46592"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45844" g_stop="46292" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E295363" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295363" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45844" e_stop="46292"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAG</genome_strand>
        <mrna_strand>TCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E279621" ref_strand="-" ref_description="SGN-E279621 [cLER-5-G13]">
      <seq>tcagcgagggcggacttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgaaaaaaaaaaaaaaaaaactcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45552" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45852" g_stop="46398" g_length="547"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="547" r_length="547" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="549" polyA_stop="567"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E279621" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>547</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279621" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45852" e_stop="46398"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTT</genome_strand>
        <mrna_strand>TCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E732831" ref_strand="+" ref_description="SGN-E732831 [LB03BA11]">
      <seq>cttgactacttgggaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45566" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45866" g_stop="46404" g_length="539"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="539" r_length="539" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="540" polyA_stop="555"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E732831" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E732831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45866" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>CTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E292177" ref_strand="-" ref_description="SGN-E292177 [cLET-1-M18]">
      <seq>gactacttggaaaaccctagtttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtaaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccagaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagaaatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcgtgcaaaaaaaaaaaaaaaaaaaaaaactcgagactagttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45569" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45869" g_stop="46404" g_length="536"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="536" r_length="536" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="537" polyA_stop="556"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E292177" ref_strand="-">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292177" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="45869" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>GACTACTTGGAAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTAAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCAGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAAATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCGTGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734154" ref_strand="+" ref_description="SGN-E734154 [LB11DG01]">
      <seq>ctattttggttcatgcacaaagcattttggctatttgggcttgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45585" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45885" g_stop="46407" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="523" r_length="523" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="524" polyA_stop="549"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734154" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734154" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45885" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>CTATTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E286918" ref_strand="+" ref_description="SGN-E286918 [cLES-6-A23]">
      <seq>tgccaagttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgaggttatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45626" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45926" g_stop="46416" g_length="491"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="491" r_length="491" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E286918" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E286918" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45926" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>TGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGGTTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E734894" ref_strand="+" ref_description="SGN-E734894 [LB13DE07]">
      <seq>gttgtgttgatgggagccgttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaatttttaataaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45632" stop="46722"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45932" g_stop="46416" g_length="485"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="485" r_length="485" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="486" polyA_stop="506"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E734894" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>485</cumulative_length_of_scored_exons>
        <coverage percentage="0.958" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E734894" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45932" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>GTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294670" ref_strand="+" ref_description="SGN-E294670 [cLET-22-J15]">
      <seq>ttgtgttgatgggagccgttgagggttaccgtattgctggtggggctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaatttttaatatcaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45633" stop="46722"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45933" g_stop="46432" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294670" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>500</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294670" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45933" e_stop="46432"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTT</genome_strand>
        <mrna_strand>TTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGGCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E733918" ref_strand="+" ref_description="SGN-E733918 [LB11BB11]">
      <seq>gttgtagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45650" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45950" g_stop="46410" g_length="461"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="462" r_length="462" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E733918" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E733918" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45950" e_stop="46410"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTG-AGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATT</genome_strand>
        <mrna_strand>GTTGTAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E297677" ref_strand="+" ref_description="SGN-E297677 [cLET-28-L14]">
      <seq>ttgagggttaccgtattgctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45651" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45951" g_stop="46416" g_length="466"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="466" r_length="466" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E297677" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>466</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297677" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45951" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>TTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E289645" ref_strand="+" ref_description="SGN-E289645 [cLET-4-P3]">
      <seq>gctggtgggcctcttggtgaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45668" stop="46699"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45968" g_stop="46399" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="432" r_length="432" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E289645" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>432</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E289645" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45968" e_stop="46399"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTG</genome_strand>
        <mrna_strand>GCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E290045" ref_strand="+" ref_description="SGN-E290045 [cLET-5-O21]">
      <seq>taactgggtcagcaatgtggtcggcaagattctccaatggaccctttccagggacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctgccgttcttgatctccttcactttgagctcaacaaaagcctctgggtcttcagcaaggcccaatgggtcaaagctaccaccagggtaaagtggatcaacaacctcaccaagaggcccacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46490" stop="45671"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46190" g_stop="45971" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="220" r_length="220" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E290045" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>220</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46190" e_stop="45971"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACC</genome_strand>
        <mrna_strand>TAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGGGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAACAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E218378" ref_strand="+" ref_description="SGN-E218378 [cLEL-18-H22](-)">
      <seq>ggtaaggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45683" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45983" g_stop="46404" g_length="422"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="422" r_length="422" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="423" polyA_stop="442"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E218378" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>422</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E218378" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45983" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>GGTAAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E228686" ref_strand="+" ref_description="SGN-E228686 [cLEL-29-J5](-)">
      <seq>ggttgttgatccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttccaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45688" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45988" g_stop="46417" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="430" r_length="430" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E228686" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E228686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45988" e_stop="46417"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATA</genome_strand>
        <mrna_strand>GGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTCCAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E710721" ref_strand="+" ref_description="SGN-E710721 [FA56CA04]">
      <seq>atccactttaccctggtggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45696" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45996" g_stop="46413" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="418" r_length="418" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E710721" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>418</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E710721" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45996" e_stop="46413"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTT</genome_strand>
        <mrna_strand>ATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E239051" ref_strand="+" ref_description="SGN-E239051 [cLEL-9-G15](-)">
      <seq>tggtagctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaacccttgccgaccaccattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45712" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46012" g_stop="46407" g_length="396"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="398" r_length="398" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="399" polyA_stop="421"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E239051" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>396</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46012" e_stop="46407"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAA-CCTTGCCGACCA-CATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</genome_strand>
        <mrna_strand>TGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCCTTGCCGACCACCATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217679" ref_strand="+" ref_description="SGN-E217679 [cLEL-25-I11](-)">
      <seq>ggtagctttgacccattgggccttgctgaagaccacagaggcttttgctgagctcaaggtgaaggagatcaagaagtggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaacccttgccgaccaccattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45713" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46013" g_stop="46418" g_length="406"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="410" r_length="410" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E217679" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>406</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E217679" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46013" e_stop="46418"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTAGCTTTGACCCATTGGGCCTTGCTGAAGACC-CAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAA-TGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAA-CCTTGCCGACCA-CATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATAT</genome_strand>
        <mrna_strand>GGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCACAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAAGTGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCCTTGCCGACCACCATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E227696" ref_strand="+" ref_description="SGN-E227696 [cLEL-30-J6](-)">
      <seq>ggtagctttgacccattgggccttgctgaagacccaaaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45713" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46013" g_stop="46417" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="405" r_length="405" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E227696" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E227696" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46013" e_stop="46417"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATA</genome_strand>
        <mrna_strand>GGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAAAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E217732" ref_strand="+" ref_description="SGN-E217732 [cLEL-25-I21](-)">
      <seq>gtagctttgacccattgggccttgctgaagacccagaaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45714" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46014" g_stop="46418" g_length="405"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="406" r_length="406" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E217732" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E217732" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46014" e_stop="46418"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAG-AGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATAT</genome_strand>
        <mrna_strand>GTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E281039" ref_strand="+" ref_description="SGN-E281039 [cLER-7-H8]">
      <seq>tttttttttagatgaaaagattcattaattaatccaaaccaatttacaataatcttgtactgaacccataacccagaatgctttaaaaaactgaccccttctacagattcatctctcacaaagctaaaaactcataatctcacactaattggagaagagtttgttgcactcactttccgggaacaaagtttgtggcaaaagcccaggcgttgttgttaactgggtcagcaatgtggtcggcaaggttctccaacggaccctttccggtgacaatagcttgaacaaagaatccaaacatggagaacatagcaagtctaccattcttgatctccttcaccttgagctcagcaaaagcctctgggtcttcagcaaggcccaatgggtcaaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="46697" stop="45716"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46406" g_stop="46016" g_length="391"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="391" r_length="391" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E281039" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>391</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281039" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46406" e_stop="46016"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTGTGCAAGATGAAAAGATTCATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCT</genome_strand>
        <mrna_strand>TTTTTTTTTAGATGAAAAGATTCATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E239272" ref_strand="+" ref_description="SGN-E239272 [cLEL-9-G15](-)">
      <seq>agctttgacccattgggccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgaaagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcccaagccaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45716" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46016" g_stop="46404" g_length="389"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="389" r_length="389" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="393" polyA_stop="415"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E239272" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>389</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239272" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46016" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>AGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAAAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCCCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E227192" ref_strand="+" ref_description="SGN-E227192 [cLEL-30-J6](-)">
      <seq>ccttgctgaagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45733" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46033" g_stop="46417" g_length="385"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="385" r_length="385" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E227192" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E227192" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46033" e_stop="46417"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATA</genome_strand>
        <mrna_strand>CCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E553159" ref_strand="+" ref_description="SGN-E553159 [cTSB-2-B2]">
      <seq>aagacccagaggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaatttttaatatcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45741" stop="46722"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46041" g_stop="46429" g_length="389"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="389" r_length="389" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E553159" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>389</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E553159" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46041" e_stop="46429"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAA</genome_strand>
        <mrna_strand>AAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E229166" ref_strand="+" ref_description="SGN-E229166 [cLEL-29-J5](-)">
      <seq>ggcttttgctgagctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45751" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46051" g_stop="46417" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="367" r_length="367" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E229166" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>367</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E229166" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46051" e_stop="46417"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATA</genome_strand>
        <mrna_strand>GGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E230192" ref_strand="+" ref_description="SGN-E230192 [cLEL-33-K7](-)">
      <seq>gctcaaggtgaaggagatcaagaatggtagacttgctatgttctccatgtttggattctttgttcaaagctattgtcaccggaaagggtccgttgaagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcccaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45763" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46063" g_stop="46404" g_length="342"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="343" r_length="343" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="344" polyA_stop="359"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E230192" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>342</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E230192" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46063" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTC-AAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>GCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAAGCTATTGTCACCGGAAAGGGTCCGTTGAAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCCCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E220861" ref_strand="+" ref_description="SGN-E220861 [cLEL-22-I10](-)">
      <seq>tcaaggtgaaggagatcaagaatggtagacctgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgaaaaatgaatctgtaaaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45765" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46065" g_stop="46404" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="340" r_length="340" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="341" polyA_stop="374"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E220861" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>340</cumulative_length_of_scored_exons>
        <coverage percentage="0.909" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E220861" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46065" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>TCAAGGTGAAGGAGATCAAGAATGGTAGACCTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAAAAATGAATCTGTAAAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E227849" ref_strand="+" ref_description="SGN-E227849 [cLEL-39-N6](-)">
      <seq>aagaatggtagacttgctatgttctccatgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgccccaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45782" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46082" g_stop="46398" g_length="317"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="317" r_length="317" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="323" polyA_stop="344"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E227849" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>317</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E227849" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46082" e_stop="46398"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTT</genome_strand>
        <mrna_strand>AAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E227854" ref_strand="+" ref_description="SGN-E227854 [cLEL-39-N17](-)">
      <seq>tggtagacttgctatgttcaccatgtttggattctttgttcaagctattgtcaccgaaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45787" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46087" g_stop="46418" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="332" r_length="332" r_score="0.961"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E227854" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>332</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E227854" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46087" e_stop="46418"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATAT</genome_strand>
        <mrna_strand>TGGTAGACTTGCTATGTTCACCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGAAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E235070" ref_strand="+" ref_description="SGN-E235070 [cLEL-6-A21](-)">
      <seq>catgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45808" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46108" g_stop="46404" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="297" r_length="297" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="298" polyA_stop="324"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E235070" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>297</cumulative_length_of_scored_exons>
        <coverage percentage="0.917" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E235070" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46108" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>CATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E234590" ref_strand="+" ref_description="SGN-E234590 [cLEL-6-A21](-)">
      <seq>catgtttggattctttgttcaagctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgaaaaatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgccaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45808" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46108" g_stop="46400" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="293" r_length="293" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="295" polyA_stop="324"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E234590" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>293</cumulative_length_of_scored_exons>
        <coverage percentage="0.904" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E234590" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46108" e_stop="46400"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGC</genome_strand>
        <mrna_strand>CATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAAAAATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E340447" ref_strand="+" ref_description="SGN-E340447 [cTOF-1-A18]">
      <seq>gctattgtcaccggaaagggtccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcanaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45830" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46130" g_stop="46404" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="275" r_length="275" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="276" polyA_stop="294"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E340447" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>275</cumulative_length_of_scored_exons>
        <coverage percentage="0.935" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340447" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46130" e_stop="46404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAA</genome_strand>
        <mrna_strand>GCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCANAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E294568" ref_strand="+" ref_description="SGN-E294568 [cLET-22-B9]">
      <seq>tccgttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactcttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgcaaattggtttggattaattaatgaatcttttcatcttgcacaagcaatttttaatatcatatttacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45850" stop="46729"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46150" g_stop="46437" g_length="288"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="288" r_length="288" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E294568" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>288</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E294568" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46150" e_stop="46437"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCAT</genome_strand>
        <mrna_strand>TCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGCAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E344188" ref_strand="+" ref_description="SGN-E344188 [cTOF-16-H21]">
      <seq>tccgttggagaaccttgccgacccattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcnaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45850" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46150" g_stop="46420" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="270" r_length="270" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E344188" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>271</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E344188" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46150" e_stop="46420"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCA</genome_strand>
        <mrna_strand>TCCGTTGGAGAACCTTGCCGACC-CATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCNAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E342788" ref_strand="+" ref_description="SGN-E342788 [cTOF-7-O24]">
      <seq>ttggagaaccttgccgacccattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45854" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46154" g_stop="46416" g_length="263"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="262" r_length="262" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E342788" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>263</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E342788" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46154" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>TTGGAGAACCTTGCCGACC-CATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E343323" ref_strand="+" ref_description="SGN-E343323 [cTOF-17-J6]">
      <seq>ttggagaaccttgccgaccacattgctgacccagttaacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcacaagcaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45854" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46154" g_stop="46416" g_length="263"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="263" r_length="263" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E343323" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>263</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E343323" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46154" e_stop="46416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAAT</genome_strand>
        <mrna_strand>TTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E348047" ref_strand="+" ref_description="SGN-E348047 [cTOF-31-I14]">
      <seq>aacaacaacgcctgggcttttgccacaaactttgttcccggaaagtgagtgcaacaaactgttctccaattagtgtgagattatgagtttttagctttgtgagagatgaatctgtagaaggggtcagttttttaaagcattctgggttatgggttcagtacaagattattgtaaattggtttggattaattaatgaatcttttcatcttgcaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="45890" stop="46708"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="46190" g_stop="46411" g_length="222"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="222" r_length="222" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E348047" ref_strand="+">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>222</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E348047" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="46190" e_stop="46411"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTT</genome_strand>
        <mrna_strand>AACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTGTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E370936" ref_strand="+" ref_description="SGN-E370936 [TUS-27-L13](-)">
      <seq>tccccgggaacttcccaatcaacccccccgctgctccatctggtactaacttaagttacgatgatgtattaagtgctcagttcaaggataccaatcatttgatgtctcttcagcagaatgagaactcagctttgtggcttcatggacatggttcaagaacaatgccaactgttcccgccaacacgtattatggctttcagggacagaatcagcaaacgggcggatttaggcaaggccaacagccatcacagagctatggatctttggggggctacccacatttctacaattctcaggctggtatctcgttggaccaacaacagcaagaaaaccttcgagatggatcgttgtctggttcacaaggccagccaaagcagtctcaacaacagttatggcaaaacggctactaaatcttactgcctcccatgtttttctgttctttctttttttggggtcttgtaatgagtgtgaaagtggcctttccagctctctctgttgaaataaccctcgttcacgatccctgaagaaacttgactgggtgctgccctgtgccatgactctgtactttacgtgtttatctcagatttaaatgtaacgtaggtaatgtctgagctaacacagtgctctagtcgtctcgtctgtgttttcttctagctcttgtttaacacggttaaccccccttttcgtcgtttttaatctatagttgctagtgttttgtttcccaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="48380" stop="46515"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48080" g_stop="47965" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="116" r_length="116" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="47964" i_stop="47431" i_length="534">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.486" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="47430" g_stop="46814" g_length="617"/>
          <reference_exon_boundary r_type="cDNA" r_start="117" r_stop="732" r_length="616" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E370936" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E370936" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48080" e_stop="47965"/>
          <exon e_start="47430" e_stop="46814"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCCGGGAACTTCCCAATCAACCCCCCTGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAGGTATCCTTTTCTTTTTGTGAGCACACATATTCCTACTGAACTCTCTCTCCAAGAAATTGCTTGTCATGACTCATCATAATGTGAAATGACCGTTTGAATAGCTACTGTCAGGGCGTCAGGGGTAGCAAAATCAGCCCAAGTGAACATGATCCCCTCAACCCGTTCTACATTTATTAGTTCAGCCCATTTTAGTCCCACCCGTTTCAGCCAATCTACGAATTGAAATTGACCGATAGAAACTGTCATAATATTTTCAAAAATACATTTTTTTGTTGGTTATGTTATATAAAACCATTCACTTTTAATTCCATTTCAGCGCAAGTGGTTTTTGGGCAGGTCATGATCCACTTTTTAGTCTATTCCCCCCATTTGACGCCTCTAGCTTCTGTGTTTGTTTGGTCAATTGCATTTGTCAATGTCCACCTTGGTGGTTGGCGCAGCATGTCTGAAATGCTCTGTAATTTCAATTTGTCATTGACTTTATCTGGCATGTCCTTTGCTTTATTTGACACTCCTGTTTCCGTCCTCTTTCAGAATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACGGCTACTAAATCTTACTGCCTCCCTTGTTTTTCTGTTCTTTCTTTTTTTGGGGTCTTGTAATGAGTGTGAAAGTGGCCTTTCCAGCTCTCTCTGTTGAAATAACCCTCGTTCACGATCCCTGAAGAAACTTGACTGGGTGCTGCCCTGTGCCATGACTCTGTACTTTACGTGTTTATCTCAGATTTAAATGTAACGTAGGTAATGTCTGAGTTAACACAGTGCTCTAGTCGTCTCGTCTGTGTTTTTTCTTTTAGCTCTTGTTTAACACGGTTAACCCCCCTTTTCGTCGTTTTTAATCTATAGTTGCTAGTGTTTT-TTTCCCAATAGTAAT</genome_strand>
        <mrna_strand>TCCCCGGGAACTTCCCAATCAACCCCCCCGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACGGCTACTAAATCTTACTGCCTCCCATGTTTTTCTGTTCTTTCTTTTTTTGGGGTCTTGTAATGAGTGTGAAAGTGGCCTTTCCAGCTCTCTCTGTTGAAATAACCCTCGTTCACGATCCCTGAAGAAACTTGACTGGGTGCTGCCCTGTGCCATGACTCTGTACTTTACGTGTTTATCTCAGATTTAAATGTAACGTAGGTAATGTCTGAGCTAACACAGTGCTCTAGTCGTCTCGTCTGTG--TTTTCTTCTAGCTCTTGTTTAACACGGTTAACCCCCCTTTTCGTCGTTTTTAATCTATAGTTGCTAGTGTTTTGTTTCCCAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E299168" ref_strand="+" ref_description="SGN-E299168 [cLET-42-H6]">
      <seq>ttcaagaacaatgccaactgttcccgccaacacgtattatggctttcagggacagaatcagcaaacgggcggatttaggcaaggccaacagccatcacagagctatggatctttggggggctacccacatttctacaattctcaggctggtatctcgttggaccaacaacagcaagaaaaccttcgagatggatcgttgtctggttcacaaggccagccaaagcagtctcaacaacagttatggcaaaacggctactaaatcttactgcctcccttgtttttctgttctttctttttttggggtcttgtaatgagtgtgaaagtggcctttccagctctctctgttgaaataaccctcgttcacgatccctgaagaaacttgactgggtgctgccctgtgccatgactctgtactttacgtgtttatctcagatttaaatgtaacgtacgtaatgtctgagtcactctaaactatacgtgtttatctcaaatttaaatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="47695" stop="46628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="47395" g_stop="46936" g_length="460"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="460" r_length="460" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E299168" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="0.920" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299168" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="47395" e_stop="46936"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACGGCTACTAAATCTTACTGCCTCCCTTGTTTTTCTGTTCTTTCTTTTTTTGGGGTCTTGTAATGAGTGTGAAAGTGGCCTTTCCAGCTCTCTCTGTTGAAATAACCCTCGTTCACGATCCCTGAAGAAACTTGACTGGGTGCTGCCCTGTGCCATGACTCTGTACTTTACGTGTTTATCTCAGATTTAAATGTAACGTAGGTAATGTCTGA</genome_strand>
        <mrna_strand>TTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACGGCTACTAAATCTTACTGCCTCCCTTGTTTTTCTGTTCTTTCTTTTTTTGGGGTCTTGTAATGAGTGTGAAAGTGGCCTTTCCAGCTCTCTCTGTTGAAATAACCCTCGTTCACGATCCCTGAAGAAACTTGACTGGGTGCTGCCCTGTGCCATGACTCTGTACTTTACGTGTTTATCTCAGATTTAAATGTAACGTACGTAATGTCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E727940" ref_strand="+" ref_description="SGN-E727940 [LA16AH02]">
      <seq>gctctgtctgaggctatgaagacagttggcttttcatcagcacagcctactcagcagatgctttctggaaatagtgtcgccacaggacctggcgtaccacaacacctaactgtacaccaatattctcaacaagctgttcctattgccccatatggcaacatgattagttatccctttgtgcctcagaactattcatatattccatctgcattccaacaagcatatcctggtaatagcagttaccatcagtcgcttgcagcaatgctcccccaatataagaataccgtttctgccagcagcttgcctcaatctgccactattccttctggatatggtgcttttggaaatacaacaagtatccccgggaacttcccaatcaacccccccgctgctccatctggtactaacttaagttacgatgatgtattacgtgctcagttcaaggataccaatcatttgatgtctcttcagcagaatgagaactcagctttgtggcttcatggacatggttcaagaacaatgccaactgttcccgccaacacgtattatggctttcagggacagaatcagcaaacgggcggatttaggcaaggccaacagccatcacagagctatggatctttggggggctacccacatttctacaattctcaggctggtatctcgttggaccaacaacagcaagaaaaccttcgagatggatcgttgtctggttcacaaggccagccaaagcagtctcaacaacagttatggcaaaacggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="48738" stop="46842"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48426" g_stop="47965" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="13" r_stop="474" r_length="462" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="47964" i_stop="47431" i_length="534">
            <donor d_prob="0.990" d_score="0.98"/>
            <acceptor a_prob="0.486" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="47430" g_stop="47145" g_length="286"/>
          <reference_exon_boundary r_type="cDNA" r_start="475" r_stop="760" r_length="286" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E727940" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>748</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727940" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48426" e_stop="47965"/>
          <exon e_start="47430" e_stop="47145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCTGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAGGTATCCTTTTCTTTTTGTGAGCACACATATTCCTACTGAACTCTCTCTCCAAGAAATTGCTTGTCATGACTCATCATAATGTGAAATGACCGTTTGAATAGCTACTGTCAGGGCGTCAGGGGTAGCAAAATCAGCCCAAGTGAACATGATCCCCTCAACCCGTTCTACATTTATTAGTTCAGCCCATTTTAGTCCCACCCGTTTCAGCCAATCTACGAATTGAAATTGACCGATAGAAACTGTCATAATATTTTCAAAAATACATTTTTTTGTTGGTTATGTTATATAAAACCATTCACTTTTAATTCCATTTCAGCGCAAGTGGTTTTTGGGCAGGTCATGATCCACTTTTTAGTCTATTCCCCCCATTTGACGCCTCTAGCTTCTGTGTTTGTTTGGTCAATTGCATTTGTCAATGTCCACCTTGGTGGTTGGCGCAGCATGTCTGAAATGCTCTGTAATTTCAATTTGTCATTGACTTTATCTGGCATGTCCTTTGCTTTATTTGACACTCCTGTTTCCGTCCTCTTTCAGAATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACG</genome_strand>
        <mrna_strand>GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCCGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTACGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E370937" ref_strand="+" ref_description="SGN-E370937 [TUS-27-L13]">
      <seq>ttgactgctaacgtgcatcctggtcgagagtctgagctttcatattctcctttttctacaacacaagcaatgcccacaaaatatggcaactcaatttcatcaatcagtggttcagctatgcctgaggctatgaagacagttggcttttcatcagcacagcctactcagcagatgctttctggaaatagtgtcgccacaggacctggcgtaccacaacacctaactgtacaccaatattctcaacaagctgttcctattgccccatatggcaacatgattagttatccctttgtgcctcagaactattcatatattccatctgcattccaacaagcatatcctggtaatagcagttaccatcagtcgcttgcagcaatgctcccccaatataagaataccgtttctgccagcagcttgcctcaatctgccactattccttctggatatggtgcttttggaaatacaacaagtatccccgggaacttcccaatcaacccccccgctgctccatctggtactaacttaagttacgatgatgtattaagtgctcagttcaaggataccaatcatttgatgtctcttcagcagaatgagaactcagctttgtggcttcatggacatggttcaagaacaatgccaactgttcccgccaacacgtattatggctttcagggacagaatcagcaaacgggcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="50174" stop="47025"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49874" g_stop="49749" g_length="126"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="126" r_length="126" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49748" i_stop="48427" i_length="1322">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48426" g_stop="47965" g_length="462"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="588" r_length="462" r_score="0.998"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="47964" i_stop="47431" i_length="534">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.486" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="47430" g_stop="47325" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="589" r_stop="694" r_length="106" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E370937" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>694</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E370937" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49874" e_stop="49749"/>
          <exon e_start="48426" e_stop="47965"/>
          <exon e_start="47430" e_stop="47325"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGACTGCTAACGTGCATCCTGGTCGAGAGTCTGAGCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAGGTAATGTTTCTGCTGGAATCTAATCAAATATTGCAGATATCTTTCTATCCTACCCTCAGCTGTAGTGTTGGTACCTTTACCCGCAGACATATTGACCTTAACTAGGACTGTTTTATAATGAATTGAGGGAAAAATTGACCATTTTGATTTTTAGTAAAAATATACAAGTGATTATGCTTGATTTCCAGGCAGGTAAGATGAGTTTGAACAGTAAGGGTCTAGCGAAAAGCTGGTTGTATTGTTTTTCTCCTGATGAAGTAAATTGTTCATGAACGAGAAGATGACTACTGTTTAACATTAGTAAAGTTATGAGTCTTGAGGCTTTGAGCCCCCATCCCCCCCCCCCCCCCCCAACCGTATTTTTTCAATTAACTAGAATGTATCAACAAAAGGACGGAATATTTATGAAGTTATAAAATTAACATAATAAAATAAATGAAGTAATGAAATGAATTATTGGGATTTATTATCTCTTGAAGTCCCAATATACATTCTGTATTTTGAAATTCCCCTCTAATGCATGTCAATATCCATTCTTGAACAAATTCGTATCCGCACAAACACCCTCTTTCCAACTCTCCCTGAAAGAGTTATTGGTCATGGCTTTTCTTAGAGTATTTTGAATGCTAAATTCGGGGCAATCAAGTATAACTGGTGGAGGAGAGAGGTGCAGTGTTATATAGTAAAACGAGGTTGGATTTGGTTTTTAACATTTTCGCAAGTATTAAGTCAGGTTCTCAGAAGTACACTTTTGTTTTCTGAAGGAAGCTTTTCGTTTGGATTGTTCTGATCGTCCCAAAAAAATAAAGTTATAGGTTTAAGCATTTAAAAGGTTCAGTATTTTCTACAAATATTGATCATAGTTCAGATACATCTTAAATGTGGTTCCTCTAAGTGATGTGTTGCTTTAGTTTGATCGGTGATTCATATTCTGGCCAGTGTGTTGTCTATCACAACTCTGTATAATATGAATTGGTGACTTGAGACGGGGAAAGCATTATACATCCTATTTTTCCCCTTTCAAAGTTGGTGCGATATTTTTCTCCCTTCTCTTGTTTTTGTGGTGTGTAATGGTTGACTGTGTCCTCTTCTATCTTTTGTGTAATGCACTCAAGTGCTCATATCTGTATCTCCCCCTTTTCCAACTGTTTGGAATGCCTTGTTTAAGCTGAGGGTCTATCGGAAACAACCTCTCTATCTCTACTAGTTGTACAAGATAGGGGTAAGGTCTGCGTACCCTCTATCCTTCCCAGACCCCACTTGTGGGATTGCATTGAGTATGTTGTCGTTGTAATAATTGACAGTGTTAGTGTTTCCTGCAGGCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCTGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAGGTATCCTTTTCTTTTTGTGAGCACACATATTCCTACTGAACTCTCTCTCCAAGAAATTGCTTGTCATGACTCATCATAATGTGAAATGACCGTTTGAATAGCTACTGTCAGGGCGTCAGGGGTAGCAAAATCAGCCCAAGTGAACATGATCCCCTCAACCCGTTCTACATTTATTAGTTCAGCCCATTTTAGTCCCACCCGTTTCAGCCAATCTACGAATTGAAATTGACCGATAGAAACTGTCATAATATTTTCAAAAATACATTTTTTTGTTGGTTATGTTATATAAAACCATTCACTTTTAATTCCATTTCAGCGCAAGTGGTTTTTGGGCAGGTCATGATCCACTTTTTAGTCTATTCCCCCCATTTGACGCCTCTAGCTTCTGTGTTTGTTTGGTCAATTGCATTTGTCAATGTCCACCTTGGTGGTTGGCGCAGCATGTCTGAAATGCTCTGTAATTTCAATTTGTCATTGACTTTATCTGGCATGTCCTTTGCTTTATTTGACACTCCTGTTTCCGTCCTCTTTCAGAATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCG</genome_strand>
        <mrna_strand>TTGACTGCTAACGTGCATCCTGGTCGAGAGTCTGAGCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCCGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E203888" ref_strand="+" ref_description="SGN-E203888 [cLEC-17-F5]">
      <seq>gctttcatattctcctttttctacaacacaagcaatgcccacaaaatatggcaactcaatttcatcaatcagtggttcagctatgcctgaggctatgaagacagttggcttttcatcagcacagcctactcagcagatgctttctggaaatagtgtcgccacaggacctggcgtaccacaacacctaactgtacaccaatattctcaacaagctgttcctattgccccatatggcaacatgattagttatccctttgtgcctcagaactattcatatattccatctgcattccaacaagcatatcctggtaatagcagttaccatcagtcgcttgcagcaatgctcccccaatataagaataccgtttctgccagcagcttgcctcaatctgccactattccttctggatatggtgcttttggaaatacaacaagtatccccgggaacttcccaatcaacccccccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="50139" stop="47751"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49839" g_stop="49749" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="91" r_length="91" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49748" i_stop="48427" i_length="1322">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48426" g_stop="48051" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="92" r_stop="467" r_length="376" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E203888" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49839" e_stop="49749"/>
          <exon e_start="48426" e_stop="48051"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAGGTAATGTTTCTGCTGGAATCTAATCAAATATTGCAGATATCTTTCTATCCTACCCTCAGCTGTAGTGTTGGTACCTTTACCCGCAGACATATTGACCTTAACTAGGACTGTTTTATAATGAATTGAGGGAAAAATTGACCATTTTGATTTTTAGTAAAAATATACAAGTGATTATGCTTGATTTCCAGGCAGGTAAGATGAGTTTGAACAGTAAGGGTCTAGCGAAAAGCTGGTTGTATTGTTTTTCTCCTGATGAAGTAAATTGTTCATGAACGAGAAGATGACTACTGTTTAACATTAGTAAAGTTATGAGTCTTGAGGCTTTGAGCCCCCATCCCCCCCCCCCCCCCCCAACCGTATTTTTTCAATTAACTAGAATGTATCAACAAAAGGACGGAATATTTATGAAGTTATAAAATTAACATAATAAAATAAATGAAGTAATGAAATGAATTATTGGGATTTATTATCTCTTGAAGTCCCAATATACATTCTGTATTTTGAAATTCCCCTCTAATGCATGTCAATATCCATTCTTGAACAAATTCGTATCCGCACAAACACCCTCTTTCCAACTCTCCCTGAAAGAGTTATTGGTCATGGCTTTTCTTAGAGTATTTTGAATGCTAAATTCGGGGCAATCAAGTATAACTGGTGGAGGAGAGAGGTGCAGTGTTATATAGTAAAACGAGGTTGGATTTGGTTTTTAACATTTTCGCAAGTATTAAGTCAGGTTCTCAGAAGTACACTTTTGTTTTCTGAAGGAAGCTTTTCGTTTGGATTGTTCTGATCGTCCCAAAAAAATAAAGTTATAGGTTTAAGCATTTAAAAGGTTCAGTATTTTCTACAAATATTGATCATAGTTCAGATACATCTTAAATGTGGTTCCTCTAAGTGATGTGTTGCTTTAGTTTGATCGGTGATTCATATTCTGGCCAGTGTGTTGTCTATCACAACTCTGTATAATATGAATTGGTGACTTGAGACGGGGAAAGCATTATACATCCTATTTTTCCCCTTTCAAAGTTGGTGCGATATTTTTCTCCCTTCTCTTGTTTTTGTGGTGTGTAATGGTTGACTGTGTCCTCTTCTATCTTTTGTGTAATGCACTCAAGTGCTCATATCTGTATCTCCCCCTTTTCCAACTGTTTGGAATGCCTTGTTTAAGCTGAGGGTCTATCGGAAACAACCTCTCTATCTCTACTAGTTGTACAAGATAGGGGTAAGGTCTGCGTACCCTCTATCCTTCCCAGACCCCACTTGTGGGATTGCATTGAGTATGTTGTCGTTGTAATAATTGACAGTGTTAGTGTTTCCTGCAGGCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCTG</genome_strand>
        <mrna_strand>GCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E271227" ref_strand="+" ref_description="SGN-E271227 [cLEM-5-G22]">
      <seq>ttgactgctaacgtgcatcctggtcgagagtctgagctttcatattctcctttttctacaacacaagcaatgcccacaaaatatggcaactcaatttcatcaatcagtggttcagctatgcctgaggctatgaagacagttggcttttcatcagcacagcctactcagcagatgctttctggaaatagtgtcgccacaggacctggcgtaccacaacacctaactgtacaccaatattctcaacaagctgttcctattgccccatatggcaacatgattagttatccctttgtgcctcagaactattcatatattccatctgcattccaacaagcatatcctggtaatagcagttaccatcagtcgcttgcagcaatgctcccccaatataagaataccgtttctgccagcagcttgcctcaatctgccactattccttctggatatggtgcttttggaaatacaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="50174" stop="47786"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49874" g_stop="49749" g_length="126"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="126" r_length="126" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="49748" i_stop="48427" i_length="1322">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48426" g_stop="48086" g_length="341"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="467" r_length="341" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E271227" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E271227" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49874" e_stop="49749"/>
          <exon e_start="48426" e_stop="48086"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGACTGCTAACGTGCATCCTGGTCGAGAGTCTGAGCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAGGTAATGTTTCTGCTGGAATCTAATCAAATATTGCAGATATCTTTCTATCCTACCCTCAGCTGTAGTGTTGGTACCTTTACCCGCAGACATATTGACCTTAACTAGGACTGTTTTATAATGAATTGAGGGAAAAATTGACCATTTTGATTTTTAGTAAAAATATACAAGTGATTATGCTTGATTTCCAGGCAGGTAAGATGAGTTTGAACAGTAAGGGTCTAGCGAAAAGCTGGTTGTATTGTTTTTCTCCTGATGAAGTAAATTGTTCATGAACGAGAAGATGACTACTGTTTAACATTAGTAAAGTTATGAGTCTTGAGGCTTTGAGCCCCCATCCCCCCCCCCCCCCCCCAACCGTATTTTTTCAATTAACTAGAATGTATCAACAAAAGGACGGAATATTTATGAAGTTATAAAATTAACATAATAAAATAAATGAAGTAATGAAATGAATTATTGGGATTTATTATCTCTTGAAGTCCCAATATACATTCTGTATTTTGAAATTCCCCTCTAATGCATGTCAATATCCATTCTTGAACAAATTCGTATCCGCACAAACACCCTCTTTCCAACTCTCCCTGAAAGAGTTATTGGTCATGGCTTTTCTTAGAGTATTTTGAATGCTAAATTCGGGGCAATCAAGTATAACTGGTGGAGGAGAGAGGTGCAGTGTTATATAGTAAAACGAGGTTGGATTTGGTTTTTAACATTTTCGCAAGTATTAAGTCAGGTTCTCAGAAGTACACTTTTGTTTTCTGAAGGAAGCTTTTCGTTTGGATTGTTCTGATCGTCCCAAAAAAATAAAGTTATAGGTTTAAGCATTTAAAAGGTTCAGTATTTTCTACAAATATTGATCATAGTTCAGATACATCTTAAATGTGGTTCCTCTAAGTGATGTGTTGCTTTAGTTTGATCGGTGATTCATATTCTGGCCAGTGTGTTGTCTATCACAACTCTGTATAATATGAATTGGTGACTTGAGACGGGGAAAGCATTATACATCCTATTTTTCCCCTTTCAAAGTTGGTGCGATATTTTTCTCCCTTCTCTTGTTTTTGTGGTGTGTAATGGTTGACTGTGTCCTCTTCTATCTTTTGTGTAATGCACTCAAGTGCTCATATCTGTATCTCCCCCTTTTCCAACTGTTTGGAATGCCTTGTTTAAGCTGAGGGTCTATCGGAAACAACCTCTCTATCTCTACTAGTTGTACAAGATAGGGGTAAGGTCTGCGTACCCTCTATCCTTCCCAGACCCCACTTGTGGGATTGCATTGAGTATGTTGTCGTTGTAATAATTGACAGTGTTAGTGTTTCCTGCAGGCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAAC</genome_strand>
        <mrna_strand>TTGACTGCTAACGTGCATCCTGGTCGAGAGTCTGAGCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E269418" ref_strand="+" ref_description="SGN-E269418 [cLEM-2-I9]">
      <seq>gggtttgccatctgatggggatagtccatctgttgtgattccagaccatcttcaggttcaaacagctgactgctcacacctaagttttggtagctttggtggtgtgtccttctctggatcactggcctctgcccccgtgaaaactagcttggaagatgcatccagagatgcagatagttcttcagttgggcacttgggcaccagggccactgaatactatggtgatggtactctcagaaatgaggctgatagtaatttattccacagaaataatgcaaatgctggaaattatgaactgccagcagcttcacaaccagaatctctgaaagcagaagctagtgatgggcattattcatatccgtcctctgctgctggctattcatacgaaagtgctcaacaattgaatgcagcgtttagtcagccacagacgagttctcatatgcaaaatcttgcttctttctcaaatgagacagtctacacaaattctttgcagagtgacatgttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="-" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="52915" stop="49570"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52615" g_stop="52412" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="204" r_length="204" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52411" i_stop="51889" i_length="523">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.977" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="51888" g_stop="51621" g_length="268"/>
          <reference_exon_boundary r_type="cDNA" r_start="205" r_stop="472" r_length="268" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="51620" i_stop="49905" i_length="1716">
            <donor d_prob="0.983" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="49904" g_stop="49870" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="507" r_length="35" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="-" ref_id="SGN-E269418" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E269418" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52615" e_stop="52412"/>
          <exon e_start="51888" e_stop="51621"/>
          <exon e_start="49904" e_stop="49870"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGTTTGCCATCTGATGGGGATAGTCCATCTGTTGTGATTCCAGACCATCTTCAAGTTCAAACAGCTGACTGCTCACACCTAAGTTTTGGTAGCTTTGGTGGTGTGTCCTTCTCTGGATCACTGGCCTCTGCCCCCGTGAAAACTAGCTTGGAAGATGCATCCAGAGATGCAGATAGTTCTTCAGTTGGGCACTTGGGCACCAGGTTTACCTTCTTTTTAGTTGATCATTTCCTTTTAGTCTTCTGAGTTACTAAATTAATTATTTGCATATAATATACTGTGGAAGTTGTGTGTTTATGATATGCTAATTGAGAACTCTAGCCAACTCTTTCTGTACGTGGACAATGATATTAAAAAGTTCTTCAATCATTTATTTTGTCGTGTAGGATTGTCTTCTTTATCGGTTGCTTGTAGATTTTTCTCATTTTATAAATAAATGACATCAATCGAGTATCCTTGCATCAATCCTGTCTTGTTTTACTTATTGGGTTTTCAAGAATTGTTCCATATTTTAGTCAACCAAATAGTAATATTAGCTTGCAGCTCTTTTCCATTTATGAAATCTTTGTTTGATGCACTTAAATGATTTTATGATGTAGTATACAATGCTCTCTTTGTCATTATGTAAAGCTTGTATGCCAATAAATTTTTTTGAAGGAGAGGTCTTGTATGCAAAGCAACAGGGGGAAATGCTAGTCTTTAATTGTAAACTTACATATTTTACAGGGCCACTGAATACTATGGTGATGGTACTCTCAGAAATGAGGCTGATAGTAATTTATTCCACAGAAATAATGCAAATGCTGGAAATTATGAACTGCCAGCAGCTTCACAACCAGAATCTCTGAAAGCAGAAGCTAGTGATGGGCATTATTCATATCCGTCCTCTGCTGCTGGCTATTCATACGAAAGTGCTCAACAATTGAATGCAGCGTTTAGTCAGCCACAGACGAGTTCTCATATGCAAAATCTTGCTTCTTTCTCAAATGAGACAGTAAGAATTTTTTCTGCCTTTTGTTCAGGATATCAAATGGTTTCATGTACTATCCTTGGGATGCACTTTCTGTTAGTTTTGACCAAATGTTAGAACTTCGATAAAATTATGTTTTCCCAAGTTTGAAGATGACTTCAGTGCAAGTGTATGCTATGCATGAGACAAGGAAATGCTGCAGCAGGAGTTGCAGTGCTGGTAATTGCTATTCTGTTCTGGGTTGTTTGGGATGGGGGATGGGCTGGCAAAGTTATCCCATGGGATAGTTATCCCACCATATATATGGGATAATTTATCCCATCATTATAGTAGCAATGGTGGGATAAATACTCCCGGGACTAACCAATATCCCTAACCAAACACAATATAAAATAATCCTGCATTTTGTCCCGGGATTATTATTCCTTTTCTCTCATACCAAATGACCCCTTAATTTTGAGTTATATGAGTGATGTCGAGACACGGGATGGCTGCAGTGCGAGTTGCAGACTTCGTAATTGCTATTTTGTATATTTGAGTGATGAGTGGCATTTAATATGGAGCTTAGTTGGCTTTATATTCTGCCACTATCTGATTGTGTAGGCTTTCTTTTCGATTGGAGGGATGGATATACAAGGAAAGGTTTGGCATGACTTATTTTGGTTAGGTGTTCAATTGTGCTTGAGAGCTCTGTTATATATTCCACATTAGAAGAAAAAACAGAACTTTTTTAAGTCATAGGCAATACTTCTCTTTTACCCGGCTTACTTCTTTTGAACTTTAGCTTTGTAATTAAATAATATTCAAGAACTTTAGCTTTTGAGGAAAAGAGTCCTTTAGTCCTTGCAAGTCTTCTTTACTGCGTAGGCGCTCTCATTTCTTTGGTTCCTTTACTAATGGGTAACAGCTTGTCATAACAGTGGTTGATACTGTTTAATCTGTATTTGAAGTGCTCAACACAATATGCTGGTTGCAAGCTTGTAACTAATAAGATATGCGTGTAATATAGTTTAGCCACTCGACATGGCATGTTTTGCTATTTTCACAAATTGGCTAGTCTTTTAATAATAAAAAGAACTTTCGAATAGGTTGTGAAACAAATAAGAGGTTCCTTATGTTGGTGTGTAGGCTACTTGAAATAGCTTATGGAAATTTTCCTAATTACTGGATTCCTTATAATAACATGGTATTTTTTCATATATTGGAAACATATCTAGTTTTCCATTTTAAAAAACTATGTTACAGCCTAGAAACATTCTAAACATATAATAGTGTTAATTCACTTGACCCTCATTTATTATGAGTCCAGCGTAGCTAAACTATTTGCGAACTTTGTATAGAAAAGTAAGTGCCTGCTTGGTGCTCTATGTTGAATAATATTTCATCCAATAATAAACTTCTAATTAGCTAAACATATGTAATGCCCAAAAGCAAAGAAGCATGACAAAAGAAGGGCAGCCCGGTGTACAAAACATCACACGTTGGAAGGGACGCTTCTCAATGCGTGTGATGTAGACAACCTACCCTAATGCAAGCATTAGTGGTTGCTTCCACTTCTCAAACCCGTGTGACCTATAGGTCACATGGAGACAACTTCAATAAAGAAGCATGTCACTTGTCAATTTTTTTTATTAAAAAACTACAGTAGCATGCCAACATGATCCGAGTTACCATTATTTGCTAGAGCATAATATCCATGTTTTACCTAATTTGCTCTCTTGCTATTTTTTGTTCGAGTAGGTCTACACAAATTCTTTGCAGAGTGACATGTTGAC</genome_strand>
        <mrna_strand>GGGTTTGCCATCTGATGGGGATAGTCCATCTGTTGTGATTCCAGACCATCTTCAGGTTCAAACAGCTGACTGCTCACACCTAAGTTTTGGTAGCTTTGGTGGTGTGTCCTTCTCTGGATCACTGGCCTCTGCCCCCGTGAAAACTAGCTTGGAAGATGCATCCAGAGATGCAGATAGTTCTTCAGTTGGGCACTTGGGCACCAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCCACTGAATACTATGGTGATGGTACTCTCAGAAATGAGGCTGATAGTAATTTATTCCACAGAAATAATGCAAATGCTGGAAATTATGAACTGCCAGCAGCTTCACAACCAGAATCTCTGAAAGCAGAAGCTAGTGATGGGCATTATTCATATCCGTCCTCTGCTGCTGGCTATTCATACGAAAGTGCTCAACAATTGAATGCAGCGTTTAGTCAGCCACAGACGAGTTCTCATATGCAAAATCTTGCTTCTTTCTCAAATGAGACA....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCTACACAAATTCTTTGCAGAGTGACATGTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E713503" ref_strand="+" ref_description="SGN-E713503 [FB08DC07]">
      <seq>cctttacttttcttttacctcctcctctcttctccgtcttcaatcgccgccgatggattggcaaggacaaaagctcgtggaacaattgatgcagatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggcacgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaaccctctcaattggttggacccaagtgtagtcgagaagtatcccaaaccactgcctgctactactggttccaagaagaagagcactaagaagtaggtcatttgactgatattccgctgacatatcacttggtctttctacggaaaactattatgatgtatcaaatacagtcggtggttttttggtatgagctgaacgttttatgctctcggtgaattttgtcagtgctataagaaagatttagttttgaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="62656" stop="64939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62954" g_stop="63005" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="0.962"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64205" g_stop="64636" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="484" r_length="432" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="485" polyA_stop="495"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E713503" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E713503" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62954" e_stop="63005"/>
          <exon e_start="64205" e_stop="64636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTTACTTTTCTTTTACCTCCTCCTCTCTTCTCCGTCTTCAATCGCCGCCGGTGAGTATTACCTGAACTCTTTCTATTCTATTTCCGTTCAGTTTTGTTGTCTGTATATTAGTTTTCTTCTGTTGATCAGTTTTCTGCATAATTGACATTGTCGTTATAGCTGTGCGCTATTTTTTTTTAGGGTTTTTTTATTTTTACGGGTTTTATTTTATCACATGTTCGATTTATATCCAGATCCAATCAATTGTGCTTTGCCTTGGAAATCTGTTAAGTCAATCAGGCTAATTTCTGTCAATTTTGATTTAGATTTTGTTGTTTGCCGATCCGAACTTGTCTGGGACTGAATTGTAGTTGTTGATGTTGTGGTTTGTTGCTGAAGTGTTACATAGTTCTGGATATACAAATTGTTGACTTATTTTGTTGGGGAAGAAATTGGGAAAAATGAAGATTTCCAAGTTAATCATAAAAGCTTTTTTGAACTGAGAAAAGATTCAAGTTTTAGTAATTTGTCGTTCTGTTGGAGCTATATTGCTTGGATCCCCATAAAAATGCATAAATTTGGACTCATTAGAAAAAAAAAGCAAACTTTTGGAGTATGTGACACATAGGGAGTAATCTCTGATAATCCGAGTAATATATTGTTGGAGAGTTTAATAAGGAAAAGTAAATCTGTGATTCACTGAAGATTTATATAAACATACTAACATAGTGGATATAGAGGTAGTTTGAGATTTGTACCTTTGTATGCATTTTGTCTGATTGAGTTTCAGAATTATTGGCTCTTTTGGAACTGACGTAGAACGTGGATGTTGAGAATTACTTTTTATCACGTAGAAAGAGGATTAACCGATTAAGTCACAATTGAAACAAAAGGAACAATAAAGGTTATGCCAACTAGTTGAATTATAGCTCAGTTTTTGTTATGCTTACATTATGTGTCCTATGTTTGCCAAGAGTCCCTTGTTAGTCTTGTTAGAAACTTACAAGTTAGTCTATGTACCGATAAATGTGGGATTAAGCATTCTCTATTTGAAGGGAAGTCTATTATGCTTTAGAAAGTATATTATCTTATGTTGGGTGAAGTCACTGAATAAAGAAAGATTTATATAATCGATCCTAACTAGTTTGTGAGTTGGGAGTTGGGACTAATGGATAGTTGATTGGATGGATAGATCAAGTATATACTTCTATTCTTCTTGTTTTGTGATAATGTGCAGTTTTATCATTTGTTTTTGTGCCGTCTATTGTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</genome_strand>
        <mrna_strand>CCTTTACTTTTCTTTTACCTCCTCCTCTCTTCTCCGTCTTCAATCGCCGCCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCACGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATATCACTTGGTCTTTCTACGGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E716777" ref_strand="+" ref_description="SGN-E716777 [FB18AA06]">
      <seq>ttttcttttacctcctcctctcttctccgtcttcaatcgccgccgatggattggcaaggacaaaagctcgtggaacaattgatgcagatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggcacgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaaccctctcaattggttggacccaagtgtagtcgagaagtatcccaaaccactgcctgctactactggttccaagaagaagagcactaagaagtaggtcatttgactgatattccgctgacatatcacttggtctttctacggaaaactattatgatgtatcaaatacagtcggtggttttttggtatgagctgaacgttttatgctctcggtgaattttgtcagtgctataagaaagatttagttttgaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="62661" stop="64939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62961" g_stop="63005" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="45" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64205" g_stop="64636" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="477" r_length="432" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="478" polyA_stop="491"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E716777" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>477</cumulative_length_of_scored_exons>
        <coverage percentage="0.971" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E716777" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62961" e_stop="63005"/>
          <exon e_start="64205" e_stop="64636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTTTACCTCCTCCTCTCTTCTCCGTCTTCAATCGCCGCCGGTGAGTATTACCTGAACTCTTTCTATTCTATTTCCGTTCAGTTTTGTTGTCTGTATATTAGTTTTCTTCTGTTGATCAGTTTTCTGCATAATTGACATTGTCGTTATAGCTGTGCGCTATTTTTTTTTAGGGTTTTTTTATTTTTACGGGTTTTATTTTATCACATGTTCGATTTATATCCAGATCCAATCAATTGTGCTTTGCCTTGGAAATCTGTTAAGTCAATCAGGCTAATTTCTGTCAATTTTGATTTAGATTTTGTTGTTTGCCGATCCGAACTTGTCTGGGACTGAATTGTAGTTGTTGATGTTGTGGTTTGTTGCTGAAGTGTTACATAGTTCTGGATATACAAATTGTTGACTTATTTTGTTGGGGAAGAAATTGGGAAAAATGAAGATTTCCAAGTTAATCATAAAAGCTTTTTTGAACTGAGAAAAGATTCAAGTTTTAGTAATTTGTCGTTCTGTTGGAGCTATATTGCTTGGATCCCCATAAAAATGCATAAATTTGGACTCATTAGAAAAAAAAAGCAAACTTTTGGAGTATGTGACACATAGGGAGTAATCTCTGATAATCCGAGTAATATATTGTTGGAGAGTTTAATAAGGAAAAGTAAATCTGTGATTCACTGAAGATTTATATAAACATACTAACATAGTGGATATAGAGGTAGTTTGAGATTTGTACCTTTGTATGCATTTTGTCTGATTGAGTTTCAGAATTATTGGCTCTTTTGGAACTGACGTAGAACGTGGATGTTGAGAATTACTTTTTATCACGTAGAAAGAGGATTAACCGATTAAGTCACAATTGAAACAAAAGGAACAATAAAGGTTATGCCAACTAGTTGAATTATAGCTCAGTTTTTGTTATGCTTACATTATGTGTCCTATGTTTGCCAAGAGTCCCTTGTTAGTCTTGTTAGAAACTTACAAGTTAGTCTATGTACCGATAAATGTGGGATTAAGCATTCTCTATTTGAAGGGAAGTCTATTATGCTTTAGAAAGTATATTATCTTATGTTGGGTGAAGTCACTGAATAAAGAAAGATTTATATAATCGATCCTAACTAGTTTGTGAGTTGGGAGTTGGGACTAATGGATAGTTGATTGGATGGATAGATCAAGTATATACTTCTATTCTTCTTGTTTTGTGATAATGTGCAGTTTTATCATTTGTTTTTGTGCCGTCTATTGTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</genome_strand>
        <mrna_strand>TTTTCTTTTACCTCCTCCTCTCTTCTCCGTCTTCAATCGCCGCCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCACGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATATCACTTGGTCTTTCTACGGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E723949" ref_strand="+" ref_description="SGN-E723949 [FC22CC06]">
      <seq>ctcttctccgtcttcaatcgccgccgatggattggcaaggacaaaagctcgtggaacaattgatgcaaatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggcacgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaaccctctcaattggttggacccaagtgtagtcaagaagtatcccaaaccactgcctgctactactggttccaagaagaagagcactaagaagtaggtcatttgactgatattccgctgacatatcacttggtctttctacggaaaactattatgatgtatcaaatacagtcggtggttttttggtatgagctgaacgttttatgctctcggtgaattttgtcagtgctataaaaaagatttagttttgaaaaaaaaaaaacaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="62680" stop="64939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62980" g_stop="63005" g_length="26"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="26" r_length="26" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64205" g_stop="64636" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="27" r_stop="458" r_length="432" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="459" polyA_stop="487"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E723949" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="0.940" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E723949" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62980" e_stop="63005"/>
          <exon e_start="64205" e_stop="64636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTCTCCGTCTTCAATCGCCGCCGGTGAGTATTACCTGAACTCTTTCTATTCTATTTCCGTTCAGTTTTGTTGTCTGTATATTAGTTTTCTTCTGTTGATCAGTTTTCTGCATAATTGACATTGTCGTTATAGCTGTGCGCTATTTTTTTTTAGGGTTTTTTTATTTTTACGGGTTTTATTTTATCACATGTTCGATTTATATCCAGATCCAATCAATTGTGCTTTGCCTTGGAAATCTGTTAAGTCAATCAGGCTAATTTCTGTCAATTTTGATTTAGATTTTGTTGTTTGCCGATCCGAACTTGTCTGGGACTGAATTGTAGTTGTTGATGTTGTGGTTTGTTGCTGAAGTGTTACATAGTTCTGGATATACAAATTGTTGACTTATTTTGTTGGGGAAGAAATTGGGAAAAATGAAGATTTCCAAGTTAATCATAAAAGCTTTTTTGAACTGAGAAAAGATTCAAGTTTTAGTAATTTGTCGTTCTGTTGGAGCTATATTGCTTGGATCCCCATAAAAATGCATAAATTTGGACTCATTAGAAAAAAAAAGCAAACTTTTGGAGTATGTGACACATAGGGAGTAATCTCTGATAATCCGAGTAATATATTGTTGGAGAGTTTAATAAGGAAAAGTAAATCTGTGATTCACTGAAGATTTATATAAACATACTAACATAGTGGATATAGAGGTAGTTTGAGATTTGTACCTTTGTATGCATTTTGTCTGATTGAGTTTCAGAATTATTGGCTCTTTTGGAACTGACGTAGAACGTGGATGTTGAGAATTACTTTTTATCACGTAGAAAGAGGATTAACCGATTAAGTCACAATTGAAACAAAAGGAACAATAAAGGTTATGCCAACTAGTTGAATTATAGCTCAGTTTTTGTTATGCTTACATTATGTGTCCTATGTTTGCCAAGAGTCCCTTGTTAGTCTTGTTAGAAACTTACAAGTTAGTCTATGTACCGATAAATGTGGGATTAAGCATTCTCTATTTGAAGGGAAGTCTATTATGCTTTAGAAAGTATATTATCTTATGTTGGGTGAAGTCACTGAATAAAGAAAGATTTATATAATCGATCCTAACTAGTTTGTGAGTTGGGAGTTGGGACTAATGGATAGTTGATTGGATGGATAGATCAAGTATATACTTCTATTCTTCTTGTTTTGTGATAATGTGCAGTTTTATCATTTGTTTTTGTGCCGTCTATTGTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</genome_strand>
        <mrna_strand>CTCTTCTCCGTCTTCAATCGCCGCCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAAATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCACGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCAAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATATCACTTGGTCTTTCTACGGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAAAAAGATTTAGTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E351828" ref_strand="+" ref_description="SGN-E351828 [cTOS-8-O19]">
      <seq>tcttctccgtcttcaatcgccgccgatggattggcaaggacaaaagctcgtggaacaattgatgcagatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggctcgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaaccctctcaattggttggacccaagtgtagtcgaaaagtatcccaaaccactgcctgctactactggttccaagaagaagaacactaagaagtaggtcatttgactgatattccgctgacatttcacttggtctttctacagaaaactattatgatgtatccaatacagtccgtgggtttttggtatgaactgaacgttttatgctctccgtgaattttgtcagtgctataagaaagatttaattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="62681" stop="64934"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62981" g_stop="63005" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64205" g_stop="64634" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="455" r_length="430" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E351828" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>455</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E351828" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62981" e_stop="63005"/>
          <exon e_start="64205" e_stop="64634"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTCCGTCTTCAATCGCCGCCGGTGAGTATTACCTGAACTCTTTCTATTCTATTTCCGTTCAGTTTTGTTGTCTGTATATTAGTTTTCTTCTGTTGATCAGTTTTCTGCATAATTGACATTGTCGTTATAGCTGTGCGCTATTTTTTTTTAGGGTTTTTTTATTTTTACGGGTTTTATTTTATCACATGTTCGATTTATATCCAGATCCAATCAATTGTGCTTTGCCTTGGAAATCTGTTAAGTCAATCAGGCTAATTTCTGTCAATTTTGATTTAGATTTTGTTGTTTGCCGATCCGAACTTGTCTGGGACTGAATTGTAGTTGTTGATGTTGTGGTTTGTTGCTGAAGTGTTACATAGTTCTGGATATACAAATTGTTGACTTATTTTGTTGGGGAAGAAATTGGGAAAAATGAAGATTTCCAAGTTAATCATAAAAGCTTTTTTGAACTGAGAAAAGATTCAAGTTTTAGTAATTTGTCGTTCTGTTGGAGCTATATTGCTTGGATCCCCATAAAAATGCATAAATTTGGACTCATTAGAAAAAAAAAGCAAACTTTTGGAGTATGTGACACATAGGGAGTAATCTCTGATAATCCGAGTAATATATTGTTGGAGAGTTTAATAAGGAAAAGTAAATCTGTGATTCACTGAAGATTTATATAAACATACTAACATAGTGGATATAGAGGTAGTTTGAGATTTGTACCTTTGTATGCATTTTGTCTGATTGAGTTTCAGAATTATTGGCTCTTTTGGAACTGACGTAGAACGTGGATGTTGAGAATTACTTTTTATCACGTAGAAAGAGGATTAACCGATTAAGTCACAATTGAAACAAAAGGAACAATAAAGGTTATGCCAACTAGTTGAATTATAGCTCAGTTTTTGTTATGCTTACATTATGTGTCCTATGTTTGCCAAGAGTCCCTTGTTAGTCTTGTTAGAAACTTACAAGTTAGTCTATGTACCGATAAATGTGGGATTAAGCATTCTCTATTTGAAGGGAAGTCTATTATGCTTTAGAAAGTATATTATCTTATGTTGGGTGAAGTCACTGAATAAAGAAAGATTTATATAATCGATCCTAACTAGTTTGTGAGTTGGGAGTTGGGACTAATGGATAGTTGATTGGATGGATAGATCAAGTATATACTTCTATTCTTCTTGTTTTGTGATAATGTGCAGTTTTATCATTTGTTTTTGTGCCGTCTATTGTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTT</genome_strand>
        <mrna_strand>TCTTCTCCGTCTTCAATCGCCGCCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAAAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAACACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCCAATACAGTCCGTGGGTTTTTGGTATGAACTGAACGTTTTATGCTCTCCGTGAATTTTGTCAGTGCTATAAGAAAGATTTAATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E356430" ref_strand="+" ref_description="SGN-E356430 [cTOS-20-L10]">
      <seq>tcttctccgtcttcaatcgccgccgatggattggcaaggacaaaagctcgtggaacaattgatgcagatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggctcgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaacccctctcattgggtgggaccccagtgtagtcgagaagtatccccaaccactgcctgctactactggttccaagaagaagagcactaagaaagtaggtcattttgactgatatttccgctgacattttcacttgggtctttctacagaaaaactatttatgatgtatcaaatacagtcggtggtttttttgggtatgagctgaaacgttttatgctctcgggtgaattttgtcagtgctataagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="62681" stop="64924"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62981" g_stop="63005" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="25" r_length="25" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64205" g_stop="64624" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="26" r_stop="457" r_length="432" r_score="0.931"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E356430" ref_strand="+">
        <total_alignment_score>0.931</total_alignment_score>
        <cumulative_length_of_scored_exons>445</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E356430" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62981" e_stop="63005"/>
          <exon e_start="64205" e_stop="64624"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTCCGTCTTCAATCGCCGCCGGTGAGTATTACCTGAACTCTTTCTATTCTATTTCCGTTCAGTTTTGTTGTCTGTATATTAGTTTTCTTCTGTTGATCAGTTTTCTGCATAATTGACATTGTCGTTATAGCTGTGCGCTATTTTTTTTTAGGGTTTTTTTATTTTTACGGGTTTTATTTTATCACATGTTCGATTTATATCCAGATCCAATCAATTGTGCTTTGCCTTGGAAATCTGTTAAGTCAATCAGGCTAATTTCTGTCAATTTTGATTTAGATTTTGTTGTTTGCCGATCCGAACTTGTCTGGGACTGAATTGTAGTTGTTGATGTTGTGGTTTGTTGCTGAAGTGTTACATAGTTCTGGATATACAAATTGTTGACTTATTTTGTTGGGGAAGAAATTGGGAAAAATGAAGATTTCCAAGTTAATCATAAAAGCTTTTTTGAACTGAGAAAAGATTCAAGTTTTAGTAATTTGTCGTTCTGTTGGAGCTATATTGCTTGGATCCCCATAAAAATGCATAAATTTGGACTCATTAGAAAAAAAAAGCAAACTTTTGGAGTATGTGACACATAGGGAGTAATCTCTGATAATCCGAGTAATATATTGTTGGAGAGTTTAATAAGGAAAAGTAAATCTGTGATTCACTGAAGATTTATATAAACATACTAACATAGTGGATATAGAGGTAGTTTGAGATTTGTACCTTTGTATGCATTTTGTCTGATTGAGTTTCAGAATTATTGGCTCTTTTGGAACTGACGTAGAACGTGGATGTTGAGAATTACTTTTTATCACGTAGAAAGAGGATTAACCGATTAAGTCACAATTGAAACAAAAGGAACAATAAAGGTTATGCCAACTAGTTGAATTATAGCTCAGTTTTTGTTATGCTTACATTATGTGTCCTATGTTTGCCAAGAGTCCCTTGTTAGTCTTGTTAGAAACTTACAAGTTAGTCTATGTACCGATAAATGTGGGATTAAGCATTCTCTATTTGAAGGGAAGTCTATTATGCTTTAGAAAGTATATTATCTTATGTTGGGTGAAGTCACTGAATAAAGAAAGATTTATATAATCGATCCTAACTAGTTTGTGAGTTGGGAGTTGGGACTAATGGATAGTTGATTGGATGGATAGATCAAGTATATACTTCTATTCTTCTTGTTTTGTGATAATGTGCAGTTTTATCATTTGTTTTTGTGCCGTCTATTGTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAA-CCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAG-AAGTAGGTCA-TTTGACTGATA-TTCCGCTGACA-TTTCACTT-GGTCTTTCTACAG-AAAACTA-TTATGATGTATCAAATACAGTCGGTGG-TTTTTT-GGTATGAGCTG-AACGTTTTATGCTCTC-GGTGAATTTTGTCAGTGCTATAAGAAA</genome_strand>
        <mrna_strand>TCTTCTCCGTCTTCAATCGCCGCCG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCCTCTCATTGGGTGGGACCCCAGTGTAGTCGAGAAGTATCCCCAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAAGTAGGTCATTTTGACTGATATTTCCGCTGACATTTTCACTTGGGTCTTTCTACAGAAAAACTATTTATGATGTATCAAATACAGTCGGTGGTTTTTTTGGGTATGAGCTGAAACGTTTTATGCTCTCGGGTGAATTTTGTCAGTGCTATAAGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato" ref_id="SGN-E225585" ref_strand="+" ref_description="SGN-E225585 [cLEL-17-G6](-)">
      <seq>gccgatggattggcaaggacaaaagctcgtggaacaattgatgcagatactgcttgtgagctttggtgtggtagcattcctcacaggctatatgttgggctcgttccaaactatgctgttaacatacgctggtggtgttgtctttacggcccttctcaccatacctaactggcctgtctataatcgcaaccctctcaattggttggacccaagtgtagtcgagaagtatcccaaaccactgcctgctactactggttccaagaagaagagcactaagaagtaggtcatttgactgatattccgctgacatttcacttggtctttctacagaaaactattatgatgtatcaaatacagtcggtggttttttggtatgagctgaacgttttatgctctcggtgaattttgtcagtgctataagaaagatttagttttgaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0103M17-dEhWY/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C00SLm0103M17.2" temp_strand="+" temp_description="C00SLm0103M17.2  CU468238.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0103M17 sequenced_by:sanger upload_account_name:uk">
        <position start="63904" stop="64939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64201" g_stop="64636" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="436" r_length="436" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="437" polyA_stop="454"/>
      <MATCH_line gen_id="C00SLm0103M17.2" gen_strand="+" ref_id="SGN-E225585" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0103M17.2" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E225585" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64201" e_stop="64636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</genome_strand>
        <mrna_strand>GCCGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>931</total_number_ESTs_reported>
    </alignment_module>
  <PGL_module xmlns="http://www.genomethreader.org/GTH_output/PGL_module/">
    <predicted_gene_location>
      <PGL_line PGL_serial="1" PGL_strand="+" PGL_start="14988" PGL_stop="18131"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="14988" e_stop="15243"/>
            <exon e_start="17012" e_stop="17103"/>
            <exon e_start="17893" e_stop="18030"/>
            <exon e_start="18112" e_stop="18131"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.642" e_score="0.906"/>
          <exon-intron don_prob="0.640" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.935" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.906">
            <gDNA_exon_boundary e_start="14988" e_stop="15243" e_length="256"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.642">
            <gDNA_intron_boundary i_start="15244" i_stop="17011" i_length="1768"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="17012" e_stop="17103" e_length="92"/>
          </exon>
          <intron i_serial="2" don_prob="0.640" acc_prob="0.998">
            <gDNA_intron_boundary i_start="17104" i_stop="17892" i_length="789"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="17893" e_stop="18030" e_length="138"/>
          </exon>
          <intron i_serial="3" don_prob="0.935" acc_prob="0.982">
            <gDNA_intron_boundary i_start="18031" i_stop="18111" i_length="81"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="18112" e_stop="18131" e_length="20"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="14988" stop="15243"/>
              <exon start="17012" stop="17103"/>
              <exon start="17893" stop="18030"/>
              <exon start="18112" stop="18131"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E331022" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTCTTCACCATTTCTATAACTGCTCATTTCAAATCTTCTTCTTATATATAAATTGCTCATTTCAAATCTTCTTCTTATATATAAATTCATCATTCTCGTAAATATATACATATTGATGATACGTTTGATTTTGTATACATATATATATTGTTGAACAATTGAATTTTGATTCGGATTTGGTGAGGTATTGTTTCTGTTTTGTAGTTGACGATTTTTGAAAATGCCGGCGGTTTCTGGACCTGTAACGCCAGGACAG : GTGTCATTTTTGCTTGGATATATACCTGTCCTCATCGCATGGATATATGCTGAGTGGTTGGAGTACAAGAAGTGGTTGTTTCCCTTTAAAGT : TCATTCAGATAATAATCTGGATGAACTTGAGATCTCAACAACCAAGGAAGAAGATCGAGCTGTCTTACTGGAAGGAGGTCTGTCAAAATCTGCATCTGTGAAGTTGTCAAGTTCATCGGTAAAAACAAACATAATTAG : GTTTTTAACAATGGAGGATG</gDNA_template>
            <first_frame> F  F  T  I  S  I  T  A  H  F  K  S  S  S  Y  I  *  I  A  H  F  K  S  S  S  Y  I  *  I  H  H  S  R  K  Y  I  H  I  D  D  T  F  D  F  V  Y  I  Y  I  L  L  N  N  *  I  L  I  R  I  W  *  G  I  V  S  V  L  *  L  T  I  F  E  N  A  G  G  F  W  T  C  N  A  R  T   : G  V  I  F  A  W  I  Y  T  C  P  H  R  M  D  I  C  *  V  V  G  V  Q  E  V  V  V  S  L  *  S  :  S  F  R  *  *  S  G  *  T  *  D  L  N  N  Q  G  R  R  S  S  C  L  T  G  R  R  S  V  K  I  C  I  C  E  V  V  K  F  I  G  K  N  K  H  N  *  :  V  F  N  N  G  G   </first_frame>
            <second_frame>  S  S  P  F  L  *  L  L  I  S  N  L  L  L  I  Y  K  L  L  I  S  N  L  L  L  I  Y  K  F  I  I  L  V  N  I  Y  I  L  M  I  R  L  I  L  Y  T  Y  I  Y  C  *  T  I  E  F  *  F  G  F  G  E  V  L  F  L  F  C  S  *  R  F  L  K  M  P  A  V  S  G  P  V  T  P  G  Q  :  V  S  F  L  L  G  Y  I  P  V  L  I  A  W  I  Y  A  E  W  L  E  Y  K  K  W  L  F  P  F  K  V :   H  S  D  N  N  L  D  E  L  E  I  S  T  T  K  E  E  D  R  A  V  L  L  E  G  G  L  S  K  S  A  S  V  K  L  S  S  S  S  V  K  T  N  I  I  R :   F  L  T  M  E  D  </second_frame>
            <third_frame>   L  H  H  F  Y  N  C  S  F  Q  I  F  F  L  Y  I  N  C  S  F  Q  I  F  F  L  Y  I  N  S  S  F  S  *  I  Y  T  Y  *  *  Y  V  *  F  C  I  H  I  Y  I  V  E  Q  L  N  F  D  S  D  L  V  R  Y  C  F  C  F  V  V  D  D  F  *  K  C  R  R  F  L  D  L  *  R  Q  D  R :   C  H  F  C  L  D  I  Y  L  S  S  S  H  G  Y  M  L  S  G  W  S  T  R  S  G  C  F  P  L  K   : F  I  Q  I  I  I  W  M  N  L  R  S  Q  Q  P  R  K  K  I  E  L  S  Y  W  K  E  V  C  Q  N  L  H  L  *  S  C  Q  V  H  R  *  K  Q  T  *  L   : G  F  *  Q  W  R  M </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="15196" stop="15243"/>
                    <exon start="17012" stop="17103"/>
                    <exon start="17893" stop="18030"/>
                    <exon start="18112" stop="18130"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>297</number_coding_nucleotides>
                  <number_encoded_amino_acids>99</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RFLKMPAVSGPVTPGQVSFLLGYIPVLIAWIYAEWLEYKKWLFPFKVHSDNNLDELEISTTKEEDRAVLLEGGLSKSASVKLSSSSVKTNIIRFLTMED</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="20774" PGL_stop="22288"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="20774" e_stop="20839"/>
            <exon e_start="20930" e_stop="21016"/>
            <exon e_start="21114" e_stop="21202"/>
            <exon e_start="21399" e_stop="21461"/>
            <exon e_start="21651" e_stop="21707"/>
            <exon e_start="21815" e_stop="21911"/>
            <exon e_start="21999" e_stop="22157"/>
            <exon e_start="22272" e_stop="22288"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.523" acc_prob="0.996" e_score="0.985"/>
          <exon-intron don_prob="0.153" acc_prob="0.977" e_score="0.989"/>
          <exon-intron don_prob="0.988" acc_prob="0.986" e_score="0.978"/>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.987" e_score="1.000"/>
          <exon-intron don_prob="0.922" acc_prob="0.758" e_score="0.994"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.985">
            <gDNA_exon_boundary e_start="20774" e_stop="20839" e_length="66"/>
          </exon>
          <intron i_serial="1" don_prob="0.523" acc_prob="0.996">
            <gDNA_intron_boundary i_start="20840" i_stop="20929" i_length="90"/>
          </intron>
          <exon e_serial="2" e_score="0.989">
            <gDNA_exon_boundary e_start="20930" e_stop="21016" e_length="87"/>
          </exon>
          <intron i_serial="2" don_prob="0.153" acc_prob="0.977">
            <gDNA_intron_boundary i_start="21017" i_stop="21113" i_length="97"/>
          </intron>
          <exon e_serial="3" e_score="0.978">
            <gDNA_exon_boundary e_start="21114" e_stop="21202" e_length="89"/>
          </exon>
          <intron i_serial="3" don_prob="0.988" acc_prob="0.986">
            <gDNA_intron_boundary i_start="21203" i_stop="21398" i_length="196"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="21399" e_stop="21461" e_length="63"/>
          </exon>
          <intron i_serial="4" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="21462" i_stop="21650" i_length="189"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="21651" e_stop="21707" e_length="57"/>
          </exon>
          <intron i_serial="5" don_prob="0.997" acc_prob="0.990">
            <gDNA_intron_boundary i_start="21708" i_stop="21814" i_length="107"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="21815" e_stop="21911" e_length="97"/>
          </exon>
          <intron i_serial="6" don_prob="0.988" acc_prob="0.987">
            <gDNA_intron_boundary i_start="21912" i_stop="21998" i_length="87"/>
          </intron>
          <exon e_serial="7" e_score="0.994">
            <gDNA_exon_boundary e_start="21999" e_stop="22157" e_length="159"/>
          </exon>
          <intron i_serial="7" don_prob="0.922" acc_prob="0.758">
            <gDNA_intron_boundary i_start="22158" i_stop="22271" i_length="114"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="22272" e_stop="22288" e_length="17"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="20774" stop="20839"/>
              <exon start="20930" stop="21016"/>
              <exon start="21114" stop="21202"/>
              <exon start="21399" stop="21461"/>
              <exon start="21651" stop="21707"/>
              <exon start="21815" stop="21911"/>
              <exon start="21999" stop="22157"/>
              <exon start="22272" stop="22288"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318820" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="21168" stop="21202"/>
              <exon start="21399" stop="21461"/>
              <exon start="21651" stop="21707"/>
              <exon start="21815" stop="21911"/>
              <exon start="21999" stop="22107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E240070" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="2" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTAGATCTGGGCTTGACCGCTATATATGGATTATTGGCATGATATATGCCTATTTTCACCCAAAT : GTTGAGAAGTGGATGGAGAAACTGGAGGAGTCTGAACCAAAGCGGAGACGGACAATTAAGTCAACCATCTGTGCAGTAACTTTAATT : GTTGGGTACTTGTGGTTTGAATACATCTACAAGCTGGACAAGACAGCTTACAACAAACTCCACCCCTACACGTCATGGATTCCTATTAC : TGTATACATATGCTTGCGTAATTTGACTCAGGAGCTGCGGAATTTCTCTCTGACACTCTTTGC : GTGGCTTGGGAAAATTACCTTAGAAACCTACATCTCCCAGTTCCACATCTGGCTGAG : ATCAAATATGCCAAATGGACAGCCTAAATGGCTCCTTTCATTTATCCCGGGCTATCCTATGCTTAATTTCATGCTGACTACAGCAATTTATGTACTG : CTATCATGTAGGCTTTTTGAACTAACCAACACACTCAAATCCGTTTTCGTACCCACAAGAGACAATCAGAAGCTGCTCCACAACTTTATTGCTGGTGTCGCGATTTCTCTGTGTTTATACATCATTTCCTTTATCCTTATTCAAATCCCTCATTAATGA : AACCATTTATCTGGACT</gDNA_template>
            <first_frame> F  R  S  G  L  D  R  Y  I  W  I  I  G  M  I  Y  A  Y  F  H  P  N  :  V  E  K  W  M  E  K  L  E  E  S  E  P  K  R  R  R  T  I  K  S  T  I  C  A  V  T  L  I  :  V  G  Y  L  W  F  E  Y  I  Y  K  L  D  K  T  A  Y  N  K  L  H  P  Y  T  S  W  I  P  I  T :   V  Y  I  C  L  R  N  L  T  Q  E  L  R  N  F  S  L  T  L  F  A :   W  L  G  K  I  T  L  E  T  Y  I  S  Q  F  H  I  W  L  R :   S  N  M  P  N  G  Q  P  K  W  L  L  S  F  I  P  G  Y  P  M  L  N  F  M  L  T  T  A  I  Y  V  L  :  L  S  C  R  L  F  E  L  T  N  T  L  K  S  V  F  V  P  T  R  D  N  Q  K  L  L  H  N  F  I  A  G  V  A  I  S  L  C  L  Y  I  I  S  F  I  L  I  Q  I  P  H  *  *  :  N  H  L  S  G   </first_frame>
            <second_frame>  L  D  L  G  L  T  A  I  Y  G  L  L  A  *  Y  M  P  I  F  T  Q  M :   L  R  S  G  W  R  N  W  R  S  L  N  Q  S  G  D  G  Q  L  S  Q  P  S  V  Q  *  L  *  L :   L  G  T  C  G  L  N  T  S  T  S  W  T  R  Q  L  T  T  N  S  T  P  T  R  H  G  F  L  L   : L  Y  T  Y  A  C  V  I  *  L  R  S  C  G  I  S  L  *  H  S  L   : R  G  L  G  K  L  P  *  K  P  T  S  P  S  S  T  S  G  *   : D  Q  I  C  Q  M  D  S  L  N  G  S  F  H  L  S  R  A  I  L  C  L  I  S  C  *  L  Q  Q  F  M  Y  C :   Y  H  V  G  F  L  N  *  P  T  H  S  N  P  F  S  Y  P  Q  E  T  I  R  S  C  S  T  T  L  L  L  V  S  R  F  L  C  V  Y  T  S  F  P  L  S  L  F  K  S  L  I  N  E :   T  I  Y  L  D  </second_frame>
            <third_frame>   *  I  W  A  *  P  L  Y  M  D  Y  W  H  D  I  C  L  F  S  P  K   : C  *  E  V  D  G  E  T  G  G  V  *  T  K  A  E  T  D  N  *  V  N  H  L  C  S  N  F  N   : C  W  V  L  V  V  *  I  H  L  Q  A  G  Q  D  S  L  Q  Q  T  P  P  L  H  V  M  D  S  Y  Y  :  C  I  H  M  L  A  *  F  D  S  G  A  A  E  F  L  S  D  T  L  C  :  V  A  W  E  N  Y  L  R  N  L  H  L  P  V  P  H  L  A  E  :  I  K  Y  A  K  W  T  A  *  M  A  P  F  I  Y  P  G  L  S  Y  A  *  F  H  A  D  Y  S  N  L  C  T   : A  I  M  *  A  F  *  T  N  Q  H  T  Q  I  R  F  R  T  H  K  R  Q  S  E  A  A  P  Q  L  Y  C  W  C  R  D  F  S  V  F  I  H  H  F  L  Y  P  Y  S  N  P  S  L  M   : K  P  F  I  W  T </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="20774" stop="20839"/>
                    <exon start="20930" stop="21016"/>
                    <exon start="21114" stop="21202"/>
                    <exon start="21399" stop="21461"/>
                    <exon start="21651" stop="21707"/>
                    <exon start="21815" stop="21911"/>
                    <exon start="21999" stop="22154"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>612</number_coding_nucleotides>
                  <number_encoded_amino_acids>204</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FRSGLDRYIWIIGMIYAYFHPNVEKWMEKLEESEPKRRRTIKSTICAVTLIVGYLWFEYIYKLDKTAYNKLHPYTSWIPITVYICLRNLTQELRNFSLTLFAWLGKITLETYISQFHIWLRSNMPNGQPKWLLSFIPGYPMLNFMLTTAIYVLLSCRLFELTNTLKSVFVPTRDNQKLLHNFIAGVAISLCLYIISFILIQIPH*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="+" PGL_start="26504" PGL_stop="30388"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="26504" e_stop="26648"/>
            <exon e_start="29835" e_stop="30388"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="0.996"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="26504" e_stop="26648" e_length="145"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="26649" i_stop="29834" i_length="3186"/>
          </intron>
          <exon e_serial="2" e_score="0.996">
            <gDNA_exon_boundary e_start="29835" e_stop="30388" e_length="554"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="26504" stop="26648"/>
              <exon start="29835" stop="30388"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E543903" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="26505" stop="26648"/>
              <exon start="29835" stop="30163"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E305862" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="3" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTCAAAGTACTCTTAAAAGCCTTTCTCACTCATTCTTCTCACTCTACATATCAACATATATTGTATGTTTCTTTCCCAATTTTGGGGAAAACAAAAAAAGATAACTCTATGGAAGAAGTTCAACAAAAGCTCTTGGATATCCCAA : ATGAAGAAATATGTGAGGATGAAAATTCCAACATTGAATCAAGTGGATCAACTAATTGTTGTTCCTACTTTGCCAAGCATAAATGGTGGTACCAAGTTGCCATTTTTACCGTTTTTACTATAATTGGAGAAGTAGTAACATCACTATTGGTTAAAACATATTTTACCAAAGGTGGTAAAAGTATATGGTTAGTCTCCTTAGTGCAAAATGCAGGGTTCCCAATTCTTCTTCCTTTCCTATACACTGTGTCACTCAAAAATCATAGCCAAATTGAGGTGATCAAAGGAAATCAAGAACCCCATATTTGCATAATCTTTTTAGTTTATGCTGTTCTAGGTGTGTTACTTGGTGGGGTTAGTGTTTTCAACTCGATCGGTCTAAAGTACCTTCAAGTATCAACACATTCTCTCACTAGTACCACTCGACTAGGGTTTAGTATTATCTTCTCTTTATTCCACAATGCACATAAGTTCACCCCAGTTATAGTAAACTCTCTAGTTCTTGTAACAGCTGCTTCAGTCATTCTTGTGGTTCATAATAACGAGTCTGGGGAA</gDNA_template>
            <first_frame> L  K  V  L  L  K  A  F  L  T  H  S  S  H  S  T  Y  Q  H  I  L  Y  V  S  F  P  I  L  G  K  T  K  K  D  N  S  M  E  E  V  Q  Q  K  L  L  D  I  P   : N  E  E  I  C  E  D  E  N  S  N  I  E  S  S  G  S  T  N  C  C  S  Y  F  A  K  H  K  W  W  Y  Q  V  A  I  F  T  V  F  T  I  I  G  E  V  V  T  S  L  L  V  K  T  Y  F  T  K  G  G  K  S  I  W  L  V  S  L  V  Q  N  A  G  F  P  I  L  L  P  F  L  Y  T  V  S  L  K  N  H  S  Q  I  E  V  I  K  G  N  Q  E  P  H  I  C  I  I  F  L  V  Y  A  V  L  G  V  L  L  G  G  V  S  V  F  N  S  I  G  L  K  Y  L  Q  V  S  T  H  S  L  T  S  T  T  R  L  G  F  S  I  I  F  S  L  F  H  N  A  H  K  F  T  P  V  I  V  N  S  L  V  L  V  T  A  A  S  V  I  L  V  V  H  N  N  E  S  G  E </first_frame>
            <second_frame>  S  K  Y  S  *  K  P  F  S  L  I  L  L  T  L  H  I  N  I  Y  C  M  F  L  S  Q  F  W  G  K  Q  K  K  I  T  L  W  K  K  F  N  K  S  S  W  I  S  Q  :  M  K  K  Y  V  R  M  K  I  P  T  L  N  Q  V  D  Q  L  I  V  V  P  T  L  P  S  I  N  G  G  T  K  L  P  F  L  P  F  L  L  *  L  E  K  *  *  H  H  Y  W  L  K  H  I  L  P  K  V  V  K  V  Y  G  *  S  P  *  C  K  M  Q  G  S  Q  F  F  F  L  S  Y  T  L  C  H  S  K  I  I  A  K  L  R  *  S  K  E  I  K  N  P  I  F  A  *  S  F  *  F  M  L  F  *  V  C  Y  L  V  G  L  V  F  S  T  R  S  V  *  S  T  F  K  Y  Q  H  I  L  S  L  V  P  L  D  *  G  L  V  L  S  S  L  Y  S  T  M  H  I  S  S  P  Q  L  *  *  T  L  *  F  L  *  Q  L  L  Q  S  F  L  W  F  I  I  T  S  L  G   </second_frame>
            <third_frame>   Q  S  T  L  K  S  L  S  H  S  F  F  S  L  Y  I  S  T  Y  I  V  C  F  F  P  N  F  G  E  N  K  K  R  *  L  Y  G  R  S  S  T  K  A  L  G  Y  P  K :   *  R  N  M  *  G  *  K  F  Q  H  *  I  K  W  I  N  *  L  L  F  L  L  C  Q  A  *  M  V  V  P  S  C  H  F  Y  R  F  Y  Y  N  W  R  S  S  N  I  T  I  G  *  N  I  F  Y  Q  R  W  *  K  Y  M  V  S  L  L  S  A  K  C  R  V  P  N  S  S  S  F  P  I  H  C  V  T  Q  K  S  *  P  N  *  G  D  Q  R  K  S  R  T  P  Y  L  H  N  L  F  S  L  C  C  S  R  C  V  T  W  W  G  *  C  F  Q  L  D  R  S  K  V  P  S  S  I  N  T  F  S  H  *  Y  H  S  T  R  V  *  Y  Y  L  L  F  I  P  Q  C  T  *  V  H  P  S  Y  S  K  L  S  S  S  C  N  S  C  F  S  H  S  C  G  S  *  *  R  V  W  G  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="26504" stop="26648"/>
                    <exon start="29835" stop="30388"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>699</number_coding_nucleotides>
                  <number_encoded_amino_acids>233</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LKVLLKAFLTHSSHSTYQHILYVSFPILGKTKKDNSMEEVQQKLLDIPNEEICEDENSNIESSGSTNCCSYFAKHKWWYQVAIFTVFTIIGEVVTSLLVKTYFTKGGKSIWLVSLVQNAGFPILLPFLYTVSLKNHSQIEVIKGNQEPHICIIFLVYAVLGVLLGGVSVFNSIGLKYLQVSTHSLTSTTRLGFSIIFSLFHNAHKFTPVIVNSLVLVTAASVILVVHNNESGE</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="37547" PGL_stop="35942"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="37547" e_stop="37503"/>
            <exon e_start="36378" e_stop="36164"/>
            <exon e_start="36076" e_stop="35942"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.962" acc_prob="0.000" e_score="0.933"/>
          <exon-intron don_prob="0.963" acc_prob="0.990" e_score="0.930"/>
          <exon-only e_score="0.978"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.933">
            <gDNA_exon_boundary e_start="37547" e_stop="37503" e_length="45"/>
          </exon>
          <intron i_serial="1" don_prob="0.962" acc_prob="0.000">
            <gDNA_intron_boundary i_start="37502" i_stop="36379" i_length="1124"/>
          </intron>
          <exon e_serial="2" e_score="0.930">
            <gDNA_exon_boundary e_start="36378" e_stop="36164" e_length="215"/>
          </exon>
          <intron i_serial="2" don_prob="0.963" acc_prob="0.990">
            <gDNA_intron_boundary i_start="36163" i_stop="36077" i_length="87"/>
          </intron>
          <exon e_serial="3" e_score="0.978">
            <gDNA_exon_boundary e_start="36076" e_stop="35942" e_length="135"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="37547" stop="37503"/>
              <exon start="36378" stop="36164"/>
              <exon start="36076" stop="35942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E366640" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="4" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GAATTCCGATTGATTTTTTCGTCGGCCGATTTCAATAGACAGCAG : GATCTCTGTCTTCAGCTGAGGTGCAGAGCTTCTTGTAATGGAGAAGGGGGATTTTTGCATCTCCACTATGGCATCATCAAATATCGCAGTTCTATTAGCTATTGGTGTCATCACTTTACTTGTGATACGAATTATTTATGTTATTAATAGGAGAAGAAAGCCGCTTCACTCCAAATCACCACGATCCCTCAGTACACTTATTGTTCTGGGTTCAG : GTGGTCACACAGCAGAAATGTTAAACTTATTATATGTCCTCCAAACAGAGAGGTTTAAGCCGAGGTATTATATTGCTGCTGCTACTGATAATATGAGTCTCCAAAAAGCACACGTGTTTGAGGATTCCTTGCTCG</gDNA_template>
            <first_frame> E  F  R  L  I  F  S  S  A  D  F  N  R  Q  Q  :  D  L  C  L  Q  L  R  C  R  A  S  C  N  G  E  G  G  F  L  H  L  H  Y  G  I  I  K  Y  R  S  S  I  S  Y  W  C  H  H  F  T  C  D  T  N  Y  L  C  Y  *  *  E  K  K  A  A  S  L  Q  I  T  T  I  P  Q  Y  T  Y  C  S  G  F  R :   W  S  H  S  R  N  V  K  L  I  I  C  P  P  N  R  E  V  *  A  E  V  L  Y  C  C  C  Y  *  *  Y  E  S  P  K  S  T  R  V  *  G  F  L  A   </first_frame>
            <second_frame>  N  S  D  *  F  F  R  R  P  I  S  I  D  S  R :   I  S  V  F  S  *  G  A  E  L  L  V  M  E  K  G  D  F  C  I  S  T  M  A  S  S  N  I  A  V  L  L  A  I  G  V  I  T  L  L  V  I  R  I  I  Y  V  I  N  R  R  R  K  P  L  H  S  K  S  P  R  S  L  S  T  L  I  V  L  G  S   : G  G  H  T  A  E  M  L  N  L  L  Y  V  L  Q  T  E  R  F  K  P  R  Y  Y  I  A  A  A  T  D  N  M  S  L  Q  K  A  H  V  F  E  D  S  L  L  </second_frame>
            <third_frame>   I  P  I  D  F  F  V  G  R  F  Q  *  T  A   : G  S  L  S  S  A  E  V  Q  S  F  L  *  W  R  R  G  I  F  A  S  P  L  W  H  H  Q  I  S  Q  F  Y  *  L  L  V  S  S  L  Y  L  *  Y  E  L  F  M  L  L  I  G  E  E  S  R  F  T  P  N  H  H  D  P  S  V  H  L  L  F  W  V  Q  :  V  V  T  Q  Q  K  C  *  T  Y  Y  M  S  S  K  Q  R  G  L  S  R  G  I  I  L  L  L  L  L  I  I  *  V  S  K  K  H  T  C  L  R  I  P  C  S </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="36359" stop="36164"/>
                    <exon start="36076" stop="35943"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>330</number_coding_nucleotides>
                  <number_encoded_amino_acids>110</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GAELLVMEKGDFCISTMASSNIAVLLAIGVITLLVIRIIYVINRRRKPLHSKSPRSLSTLIVLGSGGHTAEMLNLLYVLQTERFKPRYYIAAATDNMSLQKAHVFEDSLL</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="-" PGL_start="41448" PGL_stop="40393"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="41448" e_stop="40393"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.990"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.990">
            <gDNA_exon_boundary e_start="41448" e_stop="40393" e_length="1056"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41448" stop="40511"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733365" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41447" stop="40599"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726416" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41447" stop="40950"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41445" stop="40794"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728767" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41444" stop="40789"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348955" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41444" stop="40908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292029" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41443" stop="40632"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729846" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41441" stop="40506"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731869" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41441" stop="40762"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339843" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41441" stop="40765"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728033" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41441" stop="40913"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41440" stop="40852"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346513" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41440" stop="41071"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346583" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41439" stop="41118"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295726" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41438" stop="40787"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202855" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41437" stop="40538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41437" stop="40581"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731814" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41437" stop="40887"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725580" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41436" stop="40886"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297771" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41436" stop="40930"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282719" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41436" stop="41274"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293813" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41435" stop="40822"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295114" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41435" stop="40904"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291754" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41435" stop="40907"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293135" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41435" stop="40908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293541" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41435" stop="40958"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281608" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41434" stop="40808"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290888" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41434" stop="40923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289453" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41433" stop="40908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41433" stop="41033"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297909" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41432" stop="40644"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731871" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41432" stop="40902"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728971" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41431" stop="40533"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41431" stop="40722"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731108" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41431" stop="40766"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41431" stop="40884"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284421" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41430" stop="40756"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342361" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41430" stop="40887"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319580" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41430" stop="40901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320943" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41430" stop="40913"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283909" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41430" stop="40948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292361" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41429" stop="40771"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344666" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41427" stop="40507"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703834" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41427" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733014" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41427" stop="40995"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41424" stop="40578"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731836" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41423" stop="40766"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728668" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41423" stop="40767"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728763" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41423" stop="40789"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347145" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41423" stop="40919"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729066" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41422" stop="41116"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283995" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41420" stop="40789"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270382" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41420" stop="40883"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293060" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41420" stop="41027"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284741" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41420" stop="41036"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297599" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41419" stop="40604"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726635" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41418" stop="40624"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41418" stop="40695"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E346244" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41418" stop="40723"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347139" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41418" stop="40849"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343235" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41417" stop="41210"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294203" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41416" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732949" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41416" stop="40815"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41416" stop="40915"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294021" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41414" stop="41041"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282612" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41411" stop="41101"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280543" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41405" stop="40848"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E362510" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41396" stop="40556"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734106" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41386" stop="40626"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41385" stop="41195"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289106" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41376" stop="40953"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41374" stop="40908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278222" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41346" stop="40718"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296577" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41346" stop="40865"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291459" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41346" stop="40919"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293127" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41345" stop="41089"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293157" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41342" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733053" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41325" stop="40507"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732102" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41324" stop="40920"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41314" stop="41059"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291730" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41295" stop="40555"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340029" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41284" stop="40721"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297825" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41260" stop="40727"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284084" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41248" stop="40599"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342962" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41211" stop="40626"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292879" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41199" stop="40871"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295570" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41192" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577594" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41155" stop="40649"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41154" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733351" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41136" stop="40504"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348405" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41133" stop="40513"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735098" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41097" stop="40722"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290975" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41083" stop="40624"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282204" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41077" stop="40504"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733555" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41064" stop="40599"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282066" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41028" stop="40653"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296627" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41002" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291918" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40986" stop="40505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280426" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40965" stop="40517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294399" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40951" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237069" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40949" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234930" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40944" stop="40474"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40944" stop="40474"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733749" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40941" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236678" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40936" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234834" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40929" stop="40519"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220617" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40925" stop="40521"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281592" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40912" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40912" stop="40513"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345898" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40892" stop="40511"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732257" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40836" stop="40506"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347789" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40780" stop="40393"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235142" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40773" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217895" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40754" stop="40393"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40722" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278543" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAACAACTTTTCTTTTTGTACATTCAAGAGTTTCTCATTCTACTTCTATAATGGCTACTTCTACCATGGCTCTTTCTTCCTCTACATTTGCCGGAAAGGCGGTTAAACTCTCCCCATCTTCTTCTGAAATCACCGGAAATGGGAGAGTCACCATGAGGAAAACTGCTACCAAGGCCAAGCCAGCCTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGACCATTCTCTGGGGAATCCCCAAGCTACTTGACCGGTGAGTTTCCTGGTGATTACGGATGGGACACTGCTGGACTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGTAGATGGGCCATGCTTGGTGCTCTTGGATGTGTATTCCCCGAGCTTTTGGCCCGTAATGGTGTTAAGTTCGGTGAAGCTGTATGGTTCAAGGCTGGATCACAAATTTTCAGCGAGGGTGGACTTGACTACTTGGGAAACCCAAGCTTGGTCCATGCACAAAGCATTTTGGCTATCTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGACCCACTCTACCCTGGTGGTAGCTTTGACCCACTGGGCCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTCAAGGTAAAAGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTCGGATTCTTTGTTCAAGCTATCGTCACCGGAAAGGGTCCATTGGAGAACCTTGCTGACCATCTCGCTGATCCAGTCAATAACAATGCTTGGGCCTTCGCCACAAACTTTGTCCCCGGAAAGTGAAGTTTTTAAAAAATTAGTTGTTTGCTAATTGTAAATTACAAGAACATAATAATATATATGAGTATTGTTATTGGATGCATTAAAGAGCTGTTTGCAAGAGATTATTCATCTATAAATGTGTTGTTATCCATAAATAGCAACGCATTGAATCACCCAATCAATAAACTGTAATATGTTCACATAATTTACTATACACCAAACA</gDNA_template>
            <first_frame> K  Q  L  F  F  L  Y  I  Q  E  F  L  I  L  L  L  *  W  L  L  L  P  W  L  F  L  P  L  H  L  P  E  R  R  L  N  S  P  H  L  L  L  K  S  P  E  M  G  E  S  P  *  G  K  L  L  P  R  P  S  Q  P  P  L  V  A  H  G  M  V  L  T  V  L  S  T  W  D  H  S  L  G  N  P  Q  A  T  *  P  V  S  F  L  V  I  T  D  G  T  L  L  D  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  V  D  G  P  C  L  V  L  L  D  V  Y  S  P  S  F  W  P  V  M  V  L  S  S  V  K  L  Y  G  S  R  L  D  H  K  F  S  A  R  V  D  L  T  T  W  E  T  Q  A  W  S  M  H  K  A  F  W  L  S  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  V  G  L  L  V  R  L  L  T  H  S  T  L  V  V  A  L  T  H  W  A  L  L  M  T  Q  R  L  L  L  S  S  R  *  K  R  S  R  M  V  D  L  L  C  S  P  C  S  D  S  L  F  K  L  S  S  P  E  R  V  H  W  R  T  L  L  T  I  S  L  I  Q  S  I  T  M  L  G  P  S  P  Q  T  L  S  P  E  S  E  V  F  K  K  L  V  V  C  *  L  *  I  T  R  T  *  *  Y  I  *  V  L  L  L  D  A  L  K  S  C  L  Q  E  I  I  H  L  *  M  C  C  Y  P  *  I  A  T  H  *  I  T  Q  S  I  N  C  N  M  F  T  *  F  T  I  H  Q  T </first_frame>
            <second_frame>  N  N  F  S  F  C  T  F  K  S  F  S  F  Y  F  Y  N  G  Y  F  Y  H  G  S  F  F  L  Y  I  C  R  K  G  G  *  T  L  P  I  F  F  *  N  H  R  K  W  E  S  H  H  E  E  N  C  Y  Q  G  Q  A  S  L  L  W  *  P  M  V  W  S  *  P  C  *  V  L  G  T  I  L  W  G  I  P  K  L  L  D  R  *  V  S  W  *  L  R  M  G  H  C  W  T  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  *  M  G  H  A  W  C  S  W  M  C  I  P  R  A  F  G  P  *  W  C  *  V  R  *  S  C  M  V  Q  G  W  I  T  N  F  Q  R  G  W  T  *  L  L  G  K  P  K  L  G  P  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  W  W  A  S  W  *  G  C  *  P  T  L  P  W  W  *  L  *  P  T  G  P  C  *  *  P  R  G  F  C  *  A  Q  G  K  R  D  Q  E  W  *  T  C  Y  V  L  H  V  R  I  L  C  S  S  Y  R  H  R  K  G  S  I  G  E  P  C  *  P  S  R  *  S  S  Q  *  Q  C  L  G  L  R  H  K  L  C  P  R  K  V  K  F  L  K  N  *  L  F  A  N  C  K  L  Q  E  H  N  N  I  Y  E  Y  C  Y  W  M  H  *  R  A  V  C  K  R  L  F  I  Y  K  C  V  V  I  H  K  *  Q  R  I  E  S  P  N  Q  *  T  V  I  C  S  H  N  L  L  Y  T  K   </second_frame>
            <third_frame>   T  T  F  L  F  V  H  S  R  V  S  H  S  T  S  I  M  A  T  S  T  M  A  L  S  S  S  T  F  A  G  K  A  V  K  L  S  P  S  S  S  E  I  T  G  N  G  R  V  T  M  R  K  T  A  T  K  A  K  P  A  S  S  G  S  P  W  Y  G  P  D  R  V  K  Y  L  G  P  F  S  G  E  S  P  S  Y  L  T  G  E  F  P  G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A  G  G  P  L  G  E  V  V  D  P  L  Y  P  G  G  S  F  D  P  L  G  L  A  D  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  L  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  S  F  *  K  I  S  C  L  L  I  V  N  Y  K  N  I  I  I  Y  M  S  I  V  I  G  C  I  K  E  L  F  A  R  D  Y  S  S  I  N  V  L  L  S  I  N  S  N  A  L  N  H  P  I  N  K  L  *  Y  V  H  I  I  Y  Y  T  P  N  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="41446" stop="40595"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>849</number_coding_nucleotides>
                  <number_encoded_amino_acids>283</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TTFLFVHSRVSHSTSIMATSTMALSSSTFAGKAVKLSPSSSEITGNGRVTMRKTATKAKPASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="40529" PGL_stop="41438"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="40529" e_stop="41438"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.996"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.996">
            <gDNA_exon_boundary e_start="40529" e_stop="41438" e_length="910"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40529" stop="41205"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322463" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40529" stop="41110"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322426" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40594" stop="41040"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216783" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40908" stop="41435"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293542" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41027" stop="41327"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278398" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="41183" stop="41438"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281382" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AATACTCATATATATTATTATGTTCTTGTAATTTACAATTAGCAAACAACTAATTTTTTAAAAACTTCACTTTCCGGGGACAAAGTTTGTGGCGAAGGCCCAAGCATTGTTATTGACTGGATCAGCGAGATGGTCAGCAAGGTTCTCCAATGGACCCTTTCCGGTGACGATAGCTTGAACAAAGAATCCGAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCTTTTACCTTGAGCTCAGCAAAAGCCTCTGGGTCATCAGCAAGGCCCAGTGGGTCAAAGCTACCACCAGGGTAGAGTGGGTCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAGATAGCCAAAATGCTTTGTGCATGGACCAAGCTTGGGTTTCCCAAGTAGTCAAGTCCACCCTCGCTGAAAATTTGTGATCCAGCCTTGAACCATACAGCTTCACCGAACTTAACACCATTACGGGCCAAAAGCTCGGGGAATACACATCCAAGAGCACCAAGCATGGCCCATCTACAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGTCCAGCAGTGTCCCATCCGTAATCACCAGGAAACTCACCGGTCAAGTAGCTTGGGGATTCCCCAGAGAATGGTCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAGGCTGGCTTGGCCTTGGTAGCAGTTTTCCTCATGGTGACTCTCCCATTTCCGGTGATTTCAGAAGAAGATGGGGAGAGTTTAACCGCCTTTCCGGCAAATGTAGAGGAAGAAAGAGCCATGGTAGAAGTAGCCATTATAGAAGTAGAATGAGAAACTCTTGAATGTACAAAAAGA</gDNA_template>
            <first_frame> N  T  H  I  Y  Y  Y  V  L  V  I  Y  N  *  Q  T  T  N  F  L  K  T  S  L  S  G  D  K  V  C  G  E  G  P  S  I  V  I  D  W  I  S  E  M  V  S  K  V  L  Q  W  T  L  S  G  D  D  S  L  N  K  E  S  E  H  G  E  H  S  K  S  T  I  L  D  L  F  Y  L  E  L  S  K  S  L  W  V  I  S  K  A  Q  W  V  K  A  T  T  R  V  E  W  V  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  D  S  Q  N  A  L  C  M  D  Q  A  W  V  S  Q  V  V  K  S  T  L  A  E  N  L  *  S  S  L  E  P  Y  S  F  T  E  L  N  T  I  T  G  Q  K  L  G  E  Y  T  S  K  S  T  K  H  G  P  S  T  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  S  S  S  V  P  S  V  I  T  R  K  L  T  G  Q  V  A  W  G  F  P  R  E  W  S  Q  V  L  N  T  V  R  T  I  P  W  A  T  R  G  G  W  L  G  L  G  S  S  F  P  H  G  D  S  P  I  S  G  D  F  R  R  R  W  G  E  F  N  R  L  S  G  K  C  R  G  R  K  S  H  G  R  S  S  H  Y  R  S  R  M  R  N  S  *  M  Y  K  K  </first_frame>
            <second_frame>  I  L  I  Y  I  I  M  F  L  *  F  T  I  S  K  Q  L  I  F  *  K  L  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  R  W  S  A  R  F  S  N  G  P  F  P  V  T  I  A  *  T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  S  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  W  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  C  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  N  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L  G  D  S  P  E  N  G  P  K  Y  L  T  R  S  G  P  Y  H  G  L  P  E  E  A  G  L  A  L  V  A  V  F  L  M  V  T  L  P  F  P  V  I  S  E  E  D  G  E  S  L  T  A  F  P  A  N  V  E  E  E  R  A  M  V  E  V  A  I  I  E  V  E  *  E  T  L  E  C  T  K  R </second_frame>
            <third_frame>   Y  S  Y  I  L  L  C  S  C  N  L  Q  L  A  N  N  *  F  F  K  N  F  T  F  R  G  Q  S  L  W  R  R  P  K  H  C  Y  *  L  D  Q  R  D  G  Q  Q  G  S  P  M  D  P  F  R  *  R  *  L  E  Q  R  I  R  T  W  R  T  *  Q  V  Y  H  S  *  S  L  L  P  *  A  Q  Q  K  P  L  G  H  Q  Q  G  P  V  G  Q  S  Y  H  Q  G  R  V  G  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  R  *  P  K  C  F  V  H  G  P  S  L  G  F  P  S  S  Q  V  H  P  R  *  K  F  V  I  Q  P  *  T  I  Q  L  H  R  T  *  H  H  Y  G  P  K  A  R  G  I  H  I  Q  E  H  Q  A  W  P  I  Y  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  V  Q  Q  C  P  I  R  N  H  Q  E  T  H  R  S  S  S  L  G  I  P  Q  R  M  V  P  S  T  *  H  G  Q  D  H  T  M  G  Y  Q  R  R  L  A  W  P  W  *  Q  F  S  S  W  *  L  S  H  F  R  *  F  Q  K  K  M  G  R  V  *  P  P  F  R  Q  M  *  R  K  K  E  P  W  *  K  *  P  L  *  K  *  N  E  K  L  L  N  V  Q  K   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="40571" stop="40990"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>417</number_coding_nucleotides>
                  <number_encoded_amino_acids>139</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QTTNFLKTSLSGDKVCGEGPSIVIDWISEMVSKVLQWTLSGDDSLNKESEHGEHSKSTILDLFYLELSKSLWVISKAQWVKATTRVEWVNNLTKRPTSNTVTLNGSHQHNLASPDSQNALCMDQAWVSQVVKSTLAENL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="41141" stop="41425"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>282</number_coding_nucleotides>
                  <number_encoded_amino_acids>94</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KSSSVPSVITRKLTGQVAWGFPREWSQVLNTVRTIPWATRGGWLGLGSSFPHGDSPISGDFRRRWGEFNRLSGKCRGRKSHGRSSHYRSRMRNS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="42338" PGL_stop="43471"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="42338" e_stop="43471"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.951"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.951">
            <gDNA_exon_boundary e_start="42338" e_stop="43471" e_length="1134"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42338" stop="43073"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320863" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42520" stop="43184"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288353" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42520" stop="43135"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299380" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42530" stop="42987"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293943" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42593" stop="43108"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277134" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42600" stop="43034"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318674" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42682" stop="42901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42988" stop="43436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294890" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43019" stop="43468"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223169" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43034" stop="43397"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43063" stop="43443"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280151" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43070" stop="43451"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43071" stop="43443"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43105" stop="43467"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223668" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43117" stop="43443"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279177" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43143" stop="43471"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237304" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAGATTACTATAACCATATATAATTGCGAAATTTATCACTACCAAGTAAGAATGGATACATTATTTAACTGTTAAGTCATTATAAATGACATAAAGAAATTAATCTTTCATTTTCTCTTTTCCCATTTTTCCACTTGTTACTATATATTAATATTAATGATTTAGATTTAATCAACAAACACTAGGTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCGTACCATGGGCTACCAGAGGAGGCAGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCCATTATGAACTCTTAGAATGTACAAAAAAAGAAGAG</gDNA_template>
            <first_frame> *  I  T  I  T  I  Y  N  C  E  I  Y  H  Y  Q  V  R  M  D  T  L  F  N  C  *  V  I  I  N  D  I  K  K  L  I  F  H  F  L  F  S  H  F  S  T  C  Y  Y  I  L  I  L  M  I  *  I  *  S  T  N  T  R  F  *  Q  K  T  S  Y  I  I  S  S  N  L  Q  L  L  G  L  H  D  C  H  Q  T  I  R  Y  *  T  *  H  F  F  L  S  K  T  S  L  S  G  N  K  V  C  G  K  G  P  G  V  V  V  N  W  V  S  N  V  V  G  K  I  L  Q  W  T  L  S  S  D  N  S  L  N  K  E  S  K  H  G  E  H  S  K  S  A  V  L  D  L  L  H  F  E  L  S  K  S  L  W  V  F  S  K  A  Q  W  V  K  A  T  T  R  V  K  W  I  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W  *  F  T  R  E  W  A  Q  V  L  N  T  V  R  T  V  P  W  A  T  R  G  G  R  L  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  *  E  F  H  R  L  T  G  E  S  R  G  G  K  S  H  S  R  S  S  H  Y  E  L  L  E  C  T  K  K  E  E </first_frame>
            <second_frame>  R  L  L  *  P  Y  I  I  A  K  F  I  T  T  K  *  E  W  I  H  Y  L  T  V  K  S  L  *  M  T  *  R  N  *  S  F  I  F  S  F  P  I  F  P  L  V  T  I  Y  *  Y  *  *  F  R  F  N  Q  Q  T  L  G  F  S  K  K  L  H  I  *  S  L  V  I  Y  N  C  *  V  Y  M  I  V  I  K  Q  *  D  T  R  R  N  I  F  F  S  Q  K  L  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  M  W  S  A  R  F  S  N  G  P  F  P  V  T  I  A  *  T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  N  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L  G  D  S  P  E  N  G  P  K  Y  L  T  R  S  G  P  Y  H  G  L  P  E  E  A  G  L  G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  E  S  F  T  A  L  P  A  K  V  E  E  E  R  A  I  V  E  A  A  I  M  N  S  *  N  V  Q  K  K  K   </second_frame>
            <third_frame>   D  Y  Y  N  H  I  *  L  R  N  L  S  L  P  S  K  N  G  Y  I  I  *  L  L  S  H  Y  K  *  H  K  E  I  N  L  S  F  S  L  F  P  F  F  H  L  L  L  Y  I  N  I  N  D  L  D  L  I  N  K  H  *  V  L  A  K  N  F  I  Y  N  L  *  *  F  T  I  A  R  F  T  *  L  S  S  N  N  K  I  L  D  V  T  F  F  S  L  K  N  F  T  F  R  E  Q  S  L  W  Q  R  P  R  R  C  C  *  L  G  Q  Q  C  G  R  Q  D  S  P  M  D  P  F  Q  *  Q  *  L  E  Q  R  I  Q  T  W  R  T  *  Q  V  C  R  S  *  S  P  S  L  *  A  Q  Q  K  P  L  G  L  Q  Q  G  P  M  G  Q  S  Y  H  Q  G  K  V  D  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  V  I  H  Q  R  M  G  P  S  T  *  H  G  Q  D  R  T  M  G  Y  Q  R  R  Q  A  W  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  P  Y  R  R  K  *  R  R  K  E  P  *  *  K  Q  P  L  *  T  L  R  M  Y  K  K  R  R  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="42614" stop="43180"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>564</number_coding_nucleotides>
                  <number_encoded_amino_acids>188</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HFFLSKTSLSGNKVCGKGPGVVVNWVSNVVGKILQWTLSSDNSLNKESKHGEHSKSAVLDLLHFELSKSLWVFSKAQWVKATTRVKWINNLTKRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43233" stop="43451"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>216</number_coding_nucleotides>
                  <number_encoded_amino_acids>72</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LGDSPENGPKYLTRSGPYHGLPEEAGLGLAAVFLIVILPFPLISEEDGESFTALPAKVEEERAIVEAAIMNS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="42338" e_stop="43236"/>
            <exon e_start="43313" e_stop="43436"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.951"/>
          <exon-only e_score="0.944"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.951">
            <gDNA_exon_boundary e_start="42338" e_stop="43236" e_length="899"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="43237" i_stop="43312" i_length="76"/>
          </intron>
          <exon e_serial="2" e_score="0.944">
            <gDNA_exon_boundary e_start="43313" e_stop="43436" e_length="124"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42338" stop="43073"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320863" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42520" stop="43184"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288353" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42520" stop="43135"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299380" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42530" stop="42987"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293943" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42593" stop="43108"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277134" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42600" stop="43034"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318674" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42682" stop="42901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42731" stop="43236"/>
              <exon start="43313" stop="43436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347883" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAGATTACTATAACCATATATAATTGCGAAATTTATCACTACCAAGTAAGAATGGATACATTATTTAACTGTTAAGTCATTATAAATGACATAAAGAAATTAATCTTTCATTTTCTCTTTTCCCATTTTTCCACTTGTTACTATATATTAATATTAATGATTTAGATTTAATCAACAAACACTAGGTTTTAGCAAAAAACTTCATATATAATCTCTAGTAATTTACAATTGCTAGGTTTACATGATTGTCATCAAACAATAAGATACTAGACGTAACATTTTTTTCTCTCAAAAACTTCACTTTCCGGGAACAAAGTTTGTGGCAAAGGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGATTCTCCAATGGACCCTTTCCAGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTGCCGTTCTTGATCTCCTTCACTTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTG : GGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGAGAGTTTCACCGCCTTACCGGCGAAAGTAGAGGAGGAAAGAGCCATAGTAGAAGCAGCC</gDNA_template>
            <first_frame> *  I  T  I  T  I  Y  N  C  E  I  Y  H  Y  Q  V  R  M  D  T  L  F  N  C  *  V  I  I  N  D  I  K  K  L  I  F  H  F  L  F  S  H  F  S  T  C  Y  Y  I  L  I  L  M  I  *  I  *  S  T  N  T  R  F  *  Q  K  T  S  Y  I  I  S  S  N  L  Q  L  L  G  L  H  D  C  H  Q  T  I  R  Y  *  T  *  H  F  F  L  S  K  T  S  L  S  G  N  K  V  C  G  K  G  P  G  V  V  V  N  W  V  S  N  V  V  G  K  I  L  Q  W  T  L  S  S  D  N  S  L  N  K  E  S  K  H  G  E  H  S  K  S  A  V  L  D  L  L  H  F  E  L  S  K  S  L  W  V  F  S  K  A  Q  W  V  K  A  T  T  R  V  K  W  I  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W :   G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  E  S  F  T  A  L  P  A  K  V  E  E  E  R  A  I  V  E  A  A </first_frame>
            <second_frame>  R  L  L  *  P  Y  I  I  A  K  F  I  T  T  K  *  E  W  I  H  Y  L  T  V  K  S  L  *  M  T  *  R  N  *  S  F  I  F  S  F  P  I  F  P  L  V  T  I  Y  *  Y  *  *  F  R  F  N  Q  Q  T  L  G  F  S  K  K  L  H  I  *  S  L  V  I  Y  N  C  *  V  Y  M  I  V  I  K  Q  *  D  T  R  R  N  I  F  F  S  Q  K  L  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  M  W  S  A  R  F  S  N  G  P  F  P  V  T  I  A  *  T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  N  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L   : G  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  P  Y  R  R  K  *  R  R  K  E  P  *  *  K  Q   </second_frame>
            <third_frame>   D  Y  Y  N  H  I  *  L  R  N  L  S  L  P  S  K  N  G  Y  I  I  *  L  L  S  H  Y  K  *  H  K  E  I  N  L  S  F  S  L  F  P  F  F  H  L  L  L  Y  I  N  I  N  D  L  D  L  I  N  K  H  *  V  L  A  K  N  F  I  Y  N  L  *  *  F  T  I  A  R  F  T  *  L  S  S  N  N  K  I  L  D  V  T  F  F  S  L  K  N  F  T  F  R  E  Q  S  L  W  Q  R  P  R  R  C  C  *  L  G  Q  Q  C  G  R  Q  D  S  P  M  D  P  F  Q  *  Q  *  L  E  Q  R  I  Q  T  W  R  T  *  Q  V  C  R  S  *  S  P  S  L  *  A  Q  Q  K  P  L  G  L  Q  Q  G  P  M  G  Q  S  Y  H  Q  G  K  V  D  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  :  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  *  E  F  H  R  L  T  G  E  S  R  G  G  K  S  H  S  R  S  S  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="7" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="42614" stop="43180"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>564</number_coding_nucleotides>
                  <number_encoded_amino_acids>188</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>HFFLSKTSLSGNKVCGKGPGVVVNWVSNVVGKILQWTLSSDNSLNKESKHGEHSKSAVLDLLHFELSKSLWVFSKAQWVKATTRVKWINNLTKRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="43481" PGL_stop="42430"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="43481" e_stop="42430"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.977"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.977">
            <gDNA_exon_boundary e_start="43481" e_stop="42430" e_length="1052"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43481" stop="42804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343298" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43481" stop="42809"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344623" strand="+"/>
          </PGS_line>
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            <gDNA_exon_coordinates>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43049" stop="42726"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43039" stop="42652"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292044" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43026" stop="42518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287061" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43023" stop="42531"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289298" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43010" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343443" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42992" stop="42534"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293200" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42983" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42980" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234099" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219794" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223117" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223642" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42550"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227717" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42966" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218544" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42966" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E215932" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42957" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42950" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216009" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42916" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221709" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42915" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42908" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216131" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42904" stop="42517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296054" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42883" stop="42447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219194" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42883" stop="42517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292857" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42827" stop="42447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219622" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42820" stop="42430"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230424" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CTCAAATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAATGAAAGATTAATTTCTTT</gDNA_template>
            <first_frame> L  K  S  S  L  L  F  L  Y  I  L  R  V  H  N  G  C  F  Y  Y  G  S  F  L  L  Y  F  R  R  *  G  G  E  T  L  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  C  L  L  W  *  P  M  V  R  S  *  P  C  *  V  L  G  P  I  L  W  *  I  T  K  L  F  D  W  *  V  P  W  *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  W  W  A  S  W  *  G  C  *  S  T  L  P  W  W  *  L  *  P  I  G  P  C  *  R  P  R  G  F  C  *  A  Q  S  E  G  D  Q  E  R  Q  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  W  K  G  S  I  G  E  S  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  L  C  H  K  L  C  S  R  K  V  K  F  L  R  E  K  N  V  T  S  S  I  L  L  F  D  D  N  H  V  N  L  A  I  V  N  Y  *  R  L  Y  M  K  F  F  A  K  T  *  C  L  L  I  K  S  K  S  L  I  L  I  Y  S  N  K  W  K  N  G  K  R  E  N  E  R  L  I  S   </first_frame>
            <second_frame>  S  N  H  L  F  F  F  C  T  F  *  E  F  I  M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  A  V  K  L  S  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S  G  S  P  W  Y  G  P  D  R  V  K  Y  L  G  P  F  S  G  E  S  P  S  Y  L  T  G  E  F  P  G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A  G  G  P  L  G  E  V  V  D  P  L  Y  P  G  G  S  F  D  P  L  G  L  A  E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  S  F  *  E  K  K  M  L  R  L  V  S  Y  C  L  M  T  I  M  *  T  *  Q  L  *  I  T  R  D  Y  I  *  S  F  L  L  K  P  S  V  C  *  L  N  L  N  H  *  Y  *  Y  I  V  T  S  G  K  M  G  K  E  K  M  K  D  *  F  L  </second_frame>
            <third_frame>   Q  I  I  S  S  F  F  V  H  S  K  S  S  *  W  L  L  L  L  W  L  F  P  P  L  L  S  P  V  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  L  P  P  L  V  A  H  G  T  V  L  T  V  L  S  T  W  A  H  S  L  V  N  H  Q  A  I  *  L  V  S  S  L  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  V  G  L  L  V  R  L  L  I  H  F  T  L  V  V  A  L  T  H  W  A  L  L  K  T  Q  R  L  L  L  S  S  K  *  R  R  S  R  T  A  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  L  E  R  V  H  W  R  I  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  P  L  P  Q  T  L  F  P  E  S  E  V  F  E  R  K  K  C  Y  V  *  Y  L  I  V  *  *  Q  S  C  K  P  S  N  C  K  L  L  E  I  I  Y  E  V  F  C  *  N  L  V  F  V  D  *  I  *  I  I  N  I  N  I  *  *  Q  V  E  K  W  E  K  R  K  *  K  I  N  F  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43447" stop="42635"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>810</number_coding_nucleotides>
                  <number_encoded_amino_acids>270</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EFIMAASTMALSSSTFAGKAVKLSPSSSEISGNGRITMRKTAAKPKPASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="43480" e_stop="42901"/>
            <exon e_start="42831" e_stop="42430"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.995"/>
          <exon-only e_score="0.969"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="43480" e_stop="42901" e_length="580"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="42900" i_stop="42832" i_length="69"/>
          </intron>
          <exon e_serial="2" e_score="0.969">
            <gDNA_exon_boundary e_start="42831" e_stop="42430" e_length="402"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43480" stop="43008"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43476" stop="42926"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347706" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43470" stop="42986"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43468" stop="42926"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324676" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43468" stop="43045"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278669" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43467" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295481" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43465" stop="42904"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339060" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43465" stop="42927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316221" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43465" stop="42930"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203304" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43465" stop="42991"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324539" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43463" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298968" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43462" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E366524" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43462" stop="42996"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E265674" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43461" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E366575" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43461" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289129" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42918"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288225" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286369" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286928" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42933"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284448" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42990"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284187" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282640" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43460" stop="43031"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43459" stop="42924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43459" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43455" stop="42912"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328480" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43454" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725893" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43452" stop="42985"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725831" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43451" stop="42957"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202778" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43451" stop="42965"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725888" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43450" stop="42901"/>
              <exon start="42831" stop="42728"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344873" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43450" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282872" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43450" stop="42998"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285779" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43450" stop="43067"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290408" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43449" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294527" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43449" stop="42929"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282592" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43449" stop="42969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297812" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43448" stop="42949"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282509" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43447" stop="42946"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293650" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43446" stop="42924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341582" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43446" stop="42973"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295030" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43445" stop="42907"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288931" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43444" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285690" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43444" stop="42986"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365670" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43444" stop="42990"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E366040" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43444" stop="42998"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43444" stop="43073"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367326" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43443" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43443" stop="43079"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200146" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43443" stop="43123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296973" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43442" stop="42957"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282314" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E334566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42903"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295926" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323636" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297904" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286556" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277626" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288334" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42926"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320758" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E333604" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42928"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319622" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42930"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291919" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42932"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319970" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42947"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319589" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341533" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294551" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42955"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340280" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42955"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319467" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42956"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725969" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278685" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42964"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297164" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42965"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725977" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42988"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294889" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42990"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294821" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42991"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319516" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318928" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725883" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="42993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294213" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43015"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295280" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43020"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287556" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43027"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300629" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43033"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725495" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43036"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296632" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43069"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43071"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280947" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43073"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343481" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43073"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E315006" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43076"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283570" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43437" stop="43130"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342476" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43436" stop="42973"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43436" stop="42973"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283408" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43435" stop="42957"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288178" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43434" stop="42986"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284990" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43433" stop="42962"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282384" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43433" stop="42995"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279010" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43430" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283874" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43429" stop="42924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43429" stop="42961"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291513" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43427" stop="43029"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284583" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43424" stop="42912"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200537" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43421" stop="42927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328563" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43419" stop="43098"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730266" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43414" stop="43070"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294214" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43405" stop="43159"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279709" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43404" stop="42986"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43402" stop="43057"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279801" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43394" stop="42923"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324472" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43385" stop="43183"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324546" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43369" stop="42987"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698581" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43364" stop="43087"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320634" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43340" stop="43072"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288105" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43328" stop="43099"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288106" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43298" stop="42948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288966" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43137" stop="42944"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42827" stop="42447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219622" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42820" stop="42430"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230424" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCAAATCATCTCTTCTTTTTTTGTACATTCTAAGAGTTCATAATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTGGTAGCCCATGGTACGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG : AAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAATGAAAGATTAATTTCTTT</gDNA_template>
            <first_frame> S  N  H  L  F  F  F  C  T  F  *  E  F  I  M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  A  V  K  L  S  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S  G  S  P  W  Y  G  P  D  R  V  K  Y  L  G  P  F  S  G  E  S  P  S  Y  L  T  G  E  F  P  G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A   : E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  S  F  *  E  K  K  M  L  R  L  V  S  Y  C  L  M  T  I  M  *  T  *  Q  L  *  I  T  R  D  Y  I  *  S  F  L  L  K  P  S  V  C  *  L  N  L  N  H  *  Y  *  Y  I  V  T  S  G  K  M  G  K  E  K  M  K  D  *  F  L  </first_frame>
            <second_frame>  Q  I  I  S  S  F  F  V  H  S  K  S  S  *  W  L  L  L  L  W  L  F  P  P  L  L  S  P  V  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  L  P  P  L  V  A  H  G  T  V  L  T  V  L  S  T  W  A  H  S  L  V  N  H  Q  A  I  *  L  V  S  S  L  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  :  K  T  Q  R  L  L  L  S  S  K  *  R  R  S  R  T  A  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  L  E  R  V  H  W  R  I  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  P  L  P  Q  T  L  F  P  E  S  E  V  F  E  R  K  K  C  Y  V  *  Y  L  I  V  *  *  Q  S  C  K  P  S  N  C  K  L  L  E  I  I  Y  E  V  F  C  *  N  L  V  F  V  D  *  I  *  I  I  N  I  N  I  *  *  Q  V  E  K  W  E  K  R  K  *  K  I  N  F  F </second_frame>
            <third_frame>   K  S  S  L  L  F  L  Y  I  L  R  V  H  N  G  C  F  Y  Y  G  S  F  L  L  Y  F  R  R  *  G  G  E  T  L  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  C  L  L  W  *  P  M  V  R  S  *  P  C  *  V  L  G  P  I  L  W  *  I  T  K  L  F  D  W  *  V  P  W  *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  * :   R  P  R  G  F  C  *  A  Q  S  E  G  D  Q  E  R  Q  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  W  K  G  S  I  G  E  S  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  L  C  H  K  L  C  S  R  K  V  K  F  L  R  E  K  N  V  T  S  S  I  L  L  F  D  D  N  H  V  N  L  A  I  V  N  Y  *  R  L  Y  M  K  F  F  A  K  T  *  C  L  L  I  K  S  K  S  L  I  L  I  Y  S  N  K  W  K  N  G  K  R  E  N  E  R  L  I  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="8" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43447" stop="42901"/>
                    <exon start="42831" stop="42635"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>741</number_coding_nucleotides>
                  <number_encoded_amino_acids>247</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EFIMAASTMALSSSTFAGKAVKLSPSSSEISGNGRITMRKTAAKPKPASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="43438" e_stop="43297"/>
            <exon e_start="43209" e_stop="42430"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.951"/>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.951">
            <gDNA_exon_boundary e_start="43438" e_stop="43297" e_length="142"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="43296" i_stop="43210" i_length="87"/>
          </intron>
          <exon e_serial="2" e_score="0.994">
            <gDNA_exon_boundary e_start="43209" e_stop="42430" e_length="780"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43438" stop="43297"/>
              <exon start="43209" stop="42772"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728838" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43209" stop="42537"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734992" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43200" stop="42749"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335509" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43199" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E738525" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43198" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736948" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43181" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340324" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43181" stop="42639"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43181" stop="42739"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280394" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43178" stop="42805"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296811" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43175" stop="42664"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293315" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43167" stop="42517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297640" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43145" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732687" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43137" stop="42944"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43128" stop="42531"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284283" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43116" stop="42524"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285237" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43078" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43066" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43050" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43049" stop="42726"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43039" stop="42652"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292044" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43026" stop="42518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287061" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43023" stop="42531"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289298" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="43010" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343443" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42992" stop="42534"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293200" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42983" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42980" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234099" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219794" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223117" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223642" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42976" stop="42550"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227717" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42966" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218544" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42966" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E215932" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42957" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42950" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216009" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42916" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221709" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42915" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42908" stop="42547"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216131" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42904" stop="42517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296054" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42883" stop="42447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219194" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42883" stop="42517"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292857" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42827" stop="42447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E219622" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="42820" stop="42430"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230424" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATGGCTGCTTCTACTATGGCTCTTTCCTCCTCTACTTTCGCCGGTAAGGCGGTGAAACTCTCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCTGCCTCCTCTG : GTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAAGTGAAGGAGATCAAGAACGGCAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACTGGAAAGGGTCCATTGGAGAATCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCCTTTGCCACAAACTTTGTTCCCGGAAAGTGAAGTTTTTGAGAGAAAAAAATGTTACGTCTAGTATCTTATTGTTTGATGACAATCATGTAAACCTAGCAATTGTAAATTACTAGAGATTATATATGAAGTTTTTTGCTAAAACCTAGTGTTTGTTGATTAAATCTAAATCATTAATATTAATATATAGTAACAAGTGGAAAAATGGGAAAAGAGAAAATGAAAGATTAATTTCTTT</gDNA_template>
            <first_frame> M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  A  V  K  L  S  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S   : G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A  G  G  P  L  G  E  V  V  D  P  L  Y  P  G  G  S  F  D  P  L  G  L  A  E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  S  F  *  E  K  K  M  L  R  L  V  S  Y  C  L  M  T  I  M  *  T  *  Q  L  *  I  T  R  D  Y  I  *  S  F  L  L  K  P  S  V  C  *  L  N  L  N  H  *  Y  *  Y  I  V  T  S  G  K  M  G  K  E  K  M  K  D  *  F  L  </first_frame>
            <second_frame>  W  L  L  L  L  W  L  F  P  P  L  L  S  P  V  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  L  P  P  L  :  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  V  G  L  L  V  R  L  L  I  H  F  T  L  V  V  A  L  T  H  W  A  L  L  K  T  Q  R  L  L  L  S  S  K  *  R  R  S  R  T  A  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  L  E  R  V  H  W  R  I  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  P  L  P  Q  T  L  F  P  E  S  E  V  F  E  R  K  K  C  Y  V  *  Y  L  I  V  *  *  Q  S  C  K  P  S  N  C  K  L  L  E  I  I  Y  E  V  F  C  *  N  L  V  F  V  D  *  I  *  I  I  N  I  N  I  *  *  Q  V  E  K  W  E  K  R  K  *  K  I  N  F  F </second_frame>
            <third_frame>   G  C  F  Y  Y  G  S  F  L  L  Y  F  R  R  *  G  G  E  T  L  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  C  L  L  W :   *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  W  W  A  S  W  *  G  C  *  S  T  L  P  W  W  *  L  *  P  I  G  P  C  *  R  P  R  G  F  C  *  A  Q  S  E  G  D  Q  E  R  Q  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  W  K  G  S  I  G  E  S  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  L  C  H  K  L  C  S  R  K  V  K  F  L  R  E  K  N  V  T  S  S  I  L  L  F  D  D  N  H  V  N  L  A  I  V  N  Y  *  R  L  Y  M  K  F  F  A  K  T  *  C  L  L  I  K  S  K  S  L  I  L  I  Y  S  N  K  W  K  N  G  K  R  E  N  E  R  L  I  S   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="8" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="43438" stop="43297"/>
                    <exon start="43209" stop="42635"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>714</number_coding_nucleotides>
                  <number_encoded_amino_acids>238</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MAASTMALSSSTFAGKAVKLSPSSSEISGNGRITMRKTAAKPKPASSGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="+" PGL_start="45375" PGL_stop="46450"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="45375" e_stop="46450"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.986"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.986">
            <gDNA_exon_boundary e_start="45375" e_stop="46450" e_length="1076"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45375" stop="46137"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E724205" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45378" stop="46253"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721997" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45379" stop="46223"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E721776" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45379" stop="46183"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E720873" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45379" stop="46143"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725107" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45387" stop="46141"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723349" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45389" stop="46248"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726982" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45391" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740080" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45391" stop="45916"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725969" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="46302"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735549" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="46261"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727332" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="46209"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731543" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="46124"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344973" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="46012"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325835" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45962"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323636" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45946"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341533" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725932" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="46233"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703282" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="46227"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731965" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="46041"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345979" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45973"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293975" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295926" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45947"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288334" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45947"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291919" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45940"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319589" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45917"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319467" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297164" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45882"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294821" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319516" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45845"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300629" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45836"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296632" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45631"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298815" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46255"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727557" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46233"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726438" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46131"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340778" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46118"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344452" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46109"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342473" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="46038"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328503" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="45983"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322397" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45394" stop="45791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326121" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46122"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340886" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46066"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327646" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46060"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318193" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46040"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326660" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46028"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E334587" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="46017"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345211" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45981"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320366" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E334566" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310471" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E333604" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45874"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45803"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45799"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367326" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45796"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283570" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45395" stop="45744"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E312799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45396" stop="46273"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E738087" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45396" stop="46253"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E731374" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45396" stop="46222"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730793" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45396" stop="46204"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726953" strand="+"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296627" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45823" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391241" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45823" stop="46146"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45831" stop="46351"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291236" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45833" stop="46220"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292044" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45837" stop="46419"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734193" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45844" stop="46292"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295363" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45852" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279621" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45866" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732831" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45869" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292177" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45885" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734154" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45926" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286918" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45932" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734894" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45933" stop="46432"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294670" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45950" stop="46410"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733918" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45951" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297677" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45968" stop="46399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45983" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218378" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45988" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45996" stop="46413"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710721" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46012" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46013" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217679" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46013" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227696" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46014" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217732" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46016" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239272" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46033" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46041" stop="46429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E553159" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46051" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229166" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46063" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46065" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220861" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46082" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227849" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46087" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227854" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235070" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46400"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234590" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46130" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340447" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46437"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294568" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46420"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342788" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343323" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46190" stop="46411"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348047" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AAACATAACAACAACCATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCATCTTAAAAGTTATA</gDNA_template>
            <first_frame> K  H  N  N  N  H  Q  N  T  I  H  F  F  L  F  I  K  I  K  P  W  L  L  L  Q  W  L  F  P  P  L  P  S  P  E  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  Q  L  P  L  V  A  H  G  M  V  L  T  V  L  S  T  W  A  H  S  L  V  N  H  Q  A  I  *  L  V  S  S  L  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  V  G  L  L  V  R  L  L  I  H  F  T  L  V  V  A  L  T  H  W  A  L  L  K  T  Q  R  L  L  L  S  S  R  *  R  R  S  R  M  V  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  P  E  R  V  R  W  R  T  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  L  L  P  Q  T  L  F  P  E  S  E  C  N  K  L  F  S  N  *  C  E  I  M  S  F  *  L  C  E  R  *  I  C  R  R  G  Q  F  F  K  A  F  W  V  M  G  S  V  Q  D  Y  C  K  L  V  W  I  N  *  *  I  F  S  S  C  T  S  N  F  *  Y  H  I  Y  N  F  S  S  *  K  L   </first_frame>
            <second_frame>  N  I  T  T  T  I  K  T  Q  F  I  S  F  Y  L  L  K  L  N  H  G  C  F  Y  N  G  S  F  L  L  Y  L  R  R  K  D  G  E  T  R  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  S  F  L  W  *  P  M  V  W  S  *  P  C  *  V  L  G  P  I  L  W  *  I  T  K  L  F  D  W  *  V  P  W  *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  W  W  A  S  W  *  G  C  *  S  T  L  P  W  W  *  L  *  P  I  G  P  C  *  R  P  R  G  F  C  *  A  Q  G  E  G  D  Q  E  W  *  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  R  K  G  S  V  G  E  P  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  F  C  H  K  L  C  S  R  K  V  S  A  T  N  S  S  P  I  S  V  R  L  *  V  F  S  F  V  R  D  E  S  V  E  G  V  S  F  L  K  H  S  G  L  W  V  Q  Y  K  I  I  V  N  W  F  G  L  I  N  E  S  F  H  L  A  Q  A  I  F  N  I  I  F  T  I  F  H  L  K  S  Y  </second_frame>
            <third_frame>   T  *  Q  Q  P  S  K  H  N  S  F  L  F  I  Y  *  N  *  T  M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  T  V  K  L  A  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S  G  S  P  W  Y  G  P  D  R  V  K  Y  L  G  P  F  S  G  E  S  P  S  Y  L  T  G  E  F  P  G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A  G  G  P  L  G  E  V  V  D  P  L  Y  P  G  G  S  F  D  P  L  G  L  A  E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  V  Q  Q  T  L  L  Q  L  V  *  D  Y  E  F  L  A  L  *  E  M  N  L  *  K  G  S  V  F  *  S  I  L  G  Y  G  F  S  T  R  L  L  *  I  G  L  D  *  L  M  N  L  F  I  L  H  K  Q  F  L  I  S  Y  L  Q  F  F  I  L  K  V  I </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45431" stop="46237"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>804</number_coding_nucleotides>
                  <number_encoded_amino_acids>268</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMAASTMALSSSTFAGKTVKLAPSSSEISGNGRITMRKTAAKPKPASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="45391" e_stop="45971"/>
            <exon e_start="46041" e_stop="46437"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.987"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="45391" e_stop="45971" e_length="581"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="45972" i_stop="46040" i_length="69"/>
          </intron>
          <exon e_serial="2" e_score="0.987">
            <gDNA_exon_boundary e_start="46041" e_stop="46437" e_length="397"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45391" stop="45916"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725969" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45962"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323636" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45946"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E341533" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45864"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725465" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45392" stop="45791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725932" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45969"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295926" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45947"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288334" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45947"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E300602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291919" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45940"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290870" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45925"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319589" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45917"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319467" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45908"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297164" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45882"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294821" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45393" stop="45881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E319516" strand="+"/>
          </PGS_line>
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            <gDNA_exon_coordinates>
              <exon start="45433" stop="45874"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281608" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45433" stop="45799"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297909" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45434" stop="45949"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286556" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45436" stop="45899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E725602" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45436" stop="45899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283408" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45436" stop="45837"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323493" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45438" stop="45886"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284990" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45439" stop="45910"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282384" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45439" stop="45877"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279010" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45442" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283874" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45443" stop="45948"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45443" stop="45911"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291513" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45445" stop="45843"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284583" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45448" stop="45960"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200537" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45451" stop="45945"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328563" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45453" stop="45774"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730266" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45456" stop="45879"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45458" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278222" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45458" stop="45802"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294214" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45467" stop="45713"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279709" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45468" stop="45886"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45470" stop="45815"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279801" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45478" stop="45949"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324472" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45486" stop="45967"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291459" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45486" stop="45913"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293127" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45487" stop="45743"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293157" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45487" stop="45689"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324546" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45503" stop="45885"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698581" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45508" stop="45912"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295571" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45508" stop="45785"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320634" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45518" stop="45773"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291730" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45532" stop="45800"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288105" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45544" stop="45773"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288106" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45574" stop="45924"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288966" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45735" stop="45928"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46041" stop="46429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E553159" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46051" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229166" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46063" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46065" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220861" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46082" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227849" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46087" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227854" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235070" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46400"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234590" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46130" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340447" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46437"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294568" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46420"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342788" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343323" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46190" stop="46411"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348047" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATCAAAACACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTGGTAGCCCATGGTATGGTCCTGACCGTGTTAAGTACTTGGGCCCATTCTCTGGTGAATCACCAAGCTATTTGACTGGTGAGTTCCCTGGTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTG : AAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCAT</gDNA_template>
            <first_frame> I  K  T  Q  F  I  S  F  Y  L  L  K  L  N  H  G  C  F  Y  N  G  S  F  L  L  Y  L  R  R  K  D  G  E  T  R  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  S  F  L  W  *  P  M  V  W  S  *  P  C  *  V  L  G  P  I  L  W  *  I  T  K  L  F  D  W  *  V  P  W  *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  * :   R  P  R  G  F  C  *  A  Q  G  E  G  D  Q  E  W  *  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  R  K  G  S  V  G  E  P  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  F  C  H  K  L  C  S  R  K  V  S  A  T  N  S  S  P  I  S  V  R  L  *  V  F  S  F  V  R  D  E  S  V  E  G  V  S  F  L  K  H  S  G  L  W  V  Q  Y  K  I  I  V  N  W  F  G  L  I  N  E  S  F  H  L  A  Q  A  I  F  N  I  I  F  T  I  F  H </first_frame>
            <second_frame>  S  K  H  N  S  F  L  F  I  Y  *  N  *  T  M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  T  V  K  L  A  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S  G  S  P  W  Y  G  P  D  R  V  K  Y  L  G  P  F  S  G  E  S  P  S  Y  L  T  G  E  F  P  G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A   : E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  V  Q  Q  T  L  L  Q  L  V  *  D  Y  E  F  L  A  L  *  E  M  N  L  *  K  G  S  V  F  *  S  I  L  G  Y  G  F  S  T  R  L  L  *  I  G  L  D  *  L  M  N  L  F  I  L  H  K  Q  F  L  I  S  Y  L  Q  F  F   </second_frame>
            <third_frame>   Q  N  T  I  H  F  F  L  F  I  K  I  K  P  W  L  L  L  Q  W  L  F  P  P  L  P  S  P  E  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  Q  L  P  L  V  A  H  G  M  V  L  T  V  L  S  T  W  A  H  S  L  V  N  H  Q  A  I  *  L  V  S  S  L  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  :  K  T  Q  R  L  L  L  S  S  R  *  R  R  S  R  M  V  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  P  E  R  V  R  W  R  T  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  L  L  P  Q  T  L  F  P  E  S  E  C  N  K  L  F  S  N  *  C  E  I  M  S  F  *  L  C  E  R  *  I  C  R  R  G  Q  F  F  K  A  F  W  V  M  G  S  V  Q  D  Y  C  K  L  V  W  I  N  *  *  I  F  S  S  C  T  S  N  F  *  Y  H  I  Y  N  F  S  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="9" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45431" stop="45971"/>
                    <exon start="46041" stop="46237"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>735</number_coding_nucleotides>
                  <number_encoded_amino_acids>245</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMAASTMALSSSTFAGKTVKLAPSSSEISGNGRITMRKTAAKPKPASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="45398" e_stop="45575"/>
            <exon e_start="45663" e_stop="46450"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="45398" e_stop="45575" e_length="178"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="45576" i_stop="45662" i_length="87"/>
          </intron>
          <exon e_serial="2" e_score="0.995">
            <gDNA_exon_boundary e_start="45663" e_stop="46450" e_length="788"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45398" stop="45575"/>
              <exon start="45663" stop="46100"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728838" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45399" stop="45564"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286071" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45402" stop="45560"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E313373" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45670" stop="46399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735061" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45672" stop="46123"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335509" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45677" stop="46183"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45691" stop="46233"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45691" stop="46133"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280394" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45694" stop="46067"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296811" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45697" stop="46208"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293315" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45717" stop="46410"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548221" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45726" stop="46393"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317310" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45727" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371056" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45735" stop="45928"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45749" stop="46208"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282204" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45773" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286976" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45777" stop="46412"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348163" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45778" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285404" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45795" stop="46282"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282968" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45796" stop="46450"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E714326" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45800" stop="46293"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284341" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45802" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727195" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45802" stop="46402"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347027" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45804" stop="46179"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296627" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45823" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391241" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45823" stop="46146"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E339068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45831" stop="46351"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291236" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45833" stop="46220"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292044" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45837" stop="46419"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734193" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45844" stop="46292"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295363" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45852" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279621" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45866" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732831" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45869" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292177" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45885" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734154" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45926" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286918" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45932" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E734894" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45933" stop="46432"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294670" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45950" stop="46410"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733918" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45951" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297677" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45968" stop="46399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45983" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218378" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45988" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E228686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45996" stop="46413"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710721" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46012" stop="46407"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239051" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46013" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217679" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46013" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227696" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46014" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217732" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46016" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239272" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46033" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46041" stop="46429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E553159" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46051" stop="46417"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E229166" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46063" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230192" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46065" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220861" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46082" stop="46398"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227849" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46087" stop="46418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227854" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E235070" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46108" stop="46400"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E234590" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46130" stop="46404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340447" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46437"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294568" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46150" stop="46420"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E342788" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46154" stop="46416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343323" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46190" stop="46411"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348047" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="3" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CACAATTCATTTCTTTTTATTTATTAAAATTAAACCATGGCTGCTTCTACAATGGCTCTTTCCTCCTCTACCTTCGCCGGAAAGACGGTGAAACTCGCACCATCTTCTTCTGAAATCAGTGGAAATGGGAGAATTACAATGAGGAAGACTGCTGCCAAGCCCAAGCCAGCTTCCTCTG : GTGATTACGGATGGGACACTGCTGGGCTTTCAGCTGACCCTGAAACATTCGCTAAGAACCGTGAGTTGGAGGTTATTCATTGCAGATGGGCCATGCTTGGTGCTCTTGGATGTGTTTTCCCCGAGCTTTTGGCACGTAACGGTGTTAAGTTTGGTGAAGCTGTATGGTTCAAAGCTGGATCTCAAATTTTCAGCGAGGGCGGACTTGACTACTTGGGAAACCCTAGTTTGGTTCATGCACAAAGCATTTTGGCTATTTGGGCTTGCCAAGTTGTGTTGATGGGAGCCGTTGAGGGTTACCGTATTGCTGGTGGGCCTCTTGGTGAGGTTGTTGATCCACTTTACCCTGGTGGTAGCTTTGACCCATTGGGCCTTGCTGAAGACCCAGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGTAGACTTGCTATGTTCTCCATGTTTGGATTCTTTGTTCAAGCTATTGTCACCGGAAAGGGTCCGTTGGAGAACCTTGCCGACCACATTGCTGACCCAGTTAACAACAACGCCTGGGCTTTTGCCACAAACTTTGTTCCCGGAAAGTGAGTGCAACAAACTCTTCTCCAATTAGTGTGAGATTATGAGTTTTTAGCTTTGTGAGAGATGAATCTGTAGAAGGGGTCAGTTTTTTAAAGCATTCTGGGTTATGGGTTCAGTACAAGATTATTGTAAATTGGTTTGGATTAATTAATGAATCTTTTCATCTTGCACAAGCAATTTTTAATATCATATTTACAATTTTTCATCTTAAAAGTTATA</gDNA_template>
            <first_frame> H  N  S  F  L  F  I  Y  *  N  *  T  M  A  A  S  T  M  A  L  S  S  S  T  F  A  G  K  T  V  K  L  A  P  S  S  S  E  I  S  G  N  G  R  I  T  M  R  K  T  A  A  K  P  K  P  A  S  S   : G  D  Y  G  W  D  T  A  G  L  S  A  D  P  E  T  F  A  K  N  R  E  L  E  V  I  H  C  R  W  A  M  L  G  A  L  G  C  V  F  P  E  L  L  A  R  N  G  V  K  F  G  E  A  V  W  F  K  A  G  S  Q  I  F  S  E  G  G  L  D  Y  L  G  N  P  S  L  V  H  A  Q  S  I  L  A  I  W  A  C  Q  V  V  L  M  G  A  V  E  G  Y  R  I  A  G  G  P  L  G  E  V  V  D  P  L  Y  P  G  G  S  F  D  P  L  G  L  A  E  D  P  E  A  F  A  E  L  K  V  K  E  I  K  N  G  R  L  A  M  F  S  M  F  G  F  F  V  Q  A  I  V  T  G  K  G  P  L  E  N  L  A  D  H  I  A  D  P  V  N  N  N  A  W  A  F  A  T  N  F  V  P  G  K  *  V  Q  Q  T  L  L  Q  L  V  *  D  Y  E  F  L  A  L  *  E  M  N  L  *  K  G  S  V  F  *  S  I  L  G  Y  G  F  S  T  R  L  L  *  I  G  L  D  *  L  M  N  L  F  I  L  H  K  Q  F  L  I  S  Y  L  Q  F  F  I  L  K  V  I </first_frame>
            <second_frame>  T  I  H  F  F  L  F  I  K  I  K  P  W  L  L  L  Q  W  L  F  P  P  L  P  S  P  E  R  R  *  N  S  H  H  L  L  L  K  S  V  E  M  G  E  L  Q  *  G  R  L  L  P  S  P  S  Q  L  P  L  :  V  I  T  D  G  T  L  L  G  F  Q  L  T  L  K  H  S  L  R  T  V  S  W  R  L  F  I  A  D  G  P  C  L  V  L  L  D  V  F  S  P  S  F  W  H  V  T  V  L  S  L  V  K  L  Y  G  S  K  L  D  L  K  F  S  A  R  A  D  L  T  T  W  E  T  L  V  W  F  M  H  K  A  F  W  L  F  G  L  A  K  L  C  *  W  E  P  L  R  V  T  V  L  L  V  G  L  L  V  R  L  L  I  H  F  T  L  V  V  A  L  T  H  W  A  L  L  K  T  Q  R  L  L  L  S  S  R  *  R  R  S  R  M  V  D  L  L  C  S  P  C  L  D  S  L  F  K  L  L  S  P  E  R  V  R  W  R  T  L  P  T  T  L  L  T  Q  L  T  T  T  P  G  L  L  P  Q  T  L  F  P  E  S  E  C  N  K  L  F  S  N  *  C  E  I  M  S  F  *  L  C  E  R  *  I  C  R  R  G  Q  F  F  K  A  F  W  V  M  G  S  V  Q  D  Y  C  K  L  V  W  I  N  *  *  I  F  S  S  C  T  S  N  F  *  Y  H  I  Y  N  F  S  S  *  K  L   </second_frame>
            <third_frame>   Q  F  I  S  F  Y  L  L  K  L  N  H  G  C  F  Y  N  G  S  F  L  L  Y  L  R  R  K  D  G  E  T  R  T  I  F  F  *  N  Q  W  K  W  E  N  Y  N  E  E  D  C  C  Q  A  Q  A  S  F  L  W :   *  L  R  M  G  H  C  W  A  F  S  *  P  *  N  I  R  *  E  P  *  V  G  G  Y  S  L  Q  M  G  H  A  W  C  S  W  M  C  F  P  R  A  F  G  T  *  R  C  *  V  W  *  S  C  M  V  Q  S  W  I  S  N  F  Q  R  G  R  T  *  L  L  G  K  P  *  F  G  S  C  T  K  H  F  G  Y  L  G  L  P  S  C  V  D  G  S  R  *  G  L  P  Y  C  W  W  A  S  W  *  G  C  *  S  T  L  P  W  W  *  L  *  P  I  G  P  C  *  R  P  R  G  F  C  *  A  Q  G  E  G  D  Q  E  W  *  T  C  Y  V  L  H  V  W  I  L  C  S  S  Y  C  H  R  K  G  S  V  G  E  P  C  R  P  H  C  *  P  S  *  Q  Q  R  L  G  F  C  H  K  L  C  S  R  K  V  S  A  T  N  S  S  P  I  S  V  R  L  *  V  F  S  F  V  R  D  E  S  V  E  G  V  S  F  L  K  H  S  G  L  W  V  Q  Y  K  I  I  V  N  W  F  G  L  I  N  E  S  F  H  L  A  Q  A  I  F  N  I  I  F  T  I  F  H  L  K  S  Y  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="9" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45431" stop="45575"/>
                    <exon start="45663" stop="46237"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>717</number_coding_nucleotides>
                  <number_encoded_amino_acids>239</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TMAASTMALSSSTFAGKTVKLAPSSSEISGNGRITMRKTAAKPKPASSGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLAEDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHIADPVNNNAWAFATNFVPGK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="10" PGL_strand="-" PGL_start="46406" PGL_stop="45386"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="46406" e_stop="45386"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.983"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.983">
            <gDNA_exon_boundary e_start="46406" e_stop="45386" e_length="1021"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46406" stop="46016"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281039" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46237" stop="45627"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E322463" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46237" stop="45764"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277134" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46237" stop="45838"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318674" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46190" stop="45971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46068" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343298" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46063" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344623" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46061" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343164" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45946" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347706" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45924" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293542" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45884" stop="45399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294890" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45853" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223169" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45838" stop="45475"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45809" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280151" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45805" stop="45505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278398" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45802" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45801" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45767" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223668" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45759" stop="45386"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279163" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45755" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279177" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45729" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237304" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45669" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280772" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCTTGTGCAAGATGAAAAGATTCATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGTGTTTTGATGGTTG</gDNA_template>
            <first_frame> A  C  A  R  *  K  D  S  L  I  N  P  N  Q  F  T  I  I  L  Y  *  T  H  N  P  E  C  F  K  K  L  T  P  S  T  D  S  S  L  T  K  L  K  T  H  N  L  T  L  I  G  E  E  F  V  A  L  T  F  R  E  Q  S  L  W  Q  K  P  R  R  C  C  *  L  G  Q  Q  C  G  R  Q  G  S  P  T  D  P  F  R  *  Q  *  L  E  Q  R  I  Q  T  W  R  T  *  Q  V  Y  H  S  *  S  P  S  P  *  A  Q  Q  K  P  L  G  L  Q  Q  G  P  M  G  Q  S  Y  H  Q  G  K  V  D  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  V  I  H  Q  R  M  G  P  S  T  *  H  G  Q  D  H  T  M  G  Y  Q  R  K  L  A  W  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  S  F  R  R  R  *  R  R  K  E  P  L  *  K  Q  P  W  F  N  F  N  K  *  K  E  M  N  C  V  L  M  V  </first_frame>
            <second_frame>  L  V  Q  D  E  K  I  H  *  L  I  Q  T  N  L  Q  *  S  C  T  E  P  I  T  Q  N  A  L  K  N  *  P  L  L  Q  I  H  L  S  Q  S  *  K  L  I  I  S  H  *  L  E  K  S  L  L  H  S  L  S  G  N  K  V  C  G  K  S  P  G  V  V  V  N  W  V  S  N  V  V  G  K  V  L  Q  R  T  L  S  G  D  N  S  L  N  K  E  S  K  H  G  E  H  S  K  S  T  I  L  D  L  L  H  L  E  L  S  K  S  L  W  V  F  S  K  A  Q  W  V  K  A  T  T  R  V  K  W  I  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W  *  F  T  R  E  W  A  Q  V  L  N  T  V  R  T  I  P  W  A  T  R  G  S  W  L  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  C  E  F  H  R  L  S  G  E  G  R  G  G  K  S  H  C  R  S  S  H  G  L  I  L  I  N  K  K  K  *  I  V  F  *  W  L </second_frame>
            <third_frame>   L  C  K  M  K  R  F  I  N  *  S  K  P  I  Y  N  N  L  V  L  N  P  *  P  R  M  L  *  K  T  D  P  F  Y  R  F  I  S  H  K  A  K  N  S  *  S  H  T  N  W  R  R  V  C  C  T  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  M  W  S  A  R  F  S  N  G  P  F  P  V  T  I  A  *  T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  N  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L  G  D  S  P  E  N  G  P  K  Y  L  T  R  S  G  P  Y  H  G  L  P  E  E  A  G  L  G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  A  S  F  T  V  F  P  A  K  V  E  E  E  R  A  I  V  E  A  A  M  V  *  F  *  *  I  K  R  N  E  L  C  F  D  G   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="46258" stop="45692"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>564</number_coding_nucleotides>
                  <number_encoded_amino_acids>188</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LEKSLLHSLSGNKVCGKSPGVVVNWVSNVVGKVLQRTLSGDNSLNKESKHGEHSKSTILDLLHLELSKSLWVFSKAQWVKATTRVKWINNLTKRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45631" stop="45404"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>225</number_coding_nucleotides>
                  <number_encoded_amino_acids>75</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FTREWAQVLNTVRTIPWATRGSWLGLGSSLPHCNSPISTDFRRRWCEFHRLSGEGRGGKSHCRSSHGLILINKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="46125" e_stop="46030"/>
            <exon e_start="45979" e_stop="45386"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.948"/>
          <exon-only e_score="0.945"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.948">
            <gDNA_exon_boundary e_start="46125" e_stop="46030" e_length="96"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="46029" i_stop="45980" i_length="50"/>
          </intron>
          <exon e_serial="2" e_score="0.945">
            <gDNA_exon_boundary e_start="45979" e_stop="45386" e_length="594"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46125" stop="46030"/>
              <exon start="45979" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E708018" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45946" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347706" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45924" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293542" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45884" stop="45399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294890" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45853" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223169" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45838" stop="45475"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45809" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280151" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45805" stop="45505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278398" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45802" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45801" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45767" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223668" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45759" stop="45386"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279163" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45755" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279177" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45729" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237304" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45669" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280772" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCC : AGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGTGTTTTGATGGTTG</gDNA_template>
            <first_frame> T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  :  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W  *  F  T  R  E  W  A  Q  V  L  N  T  V  R  T  I  P  W  A  T  R  G  S  W  L  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  C  E  F  H  R  L  S  G  E  G  R  G  G  K  S  H  C  R  S  S  H  G  L  I  L  I  N  K  K  K  *  I  V  F  *  W  L </first_frame>
            <second_frame>  Q  R  I  Q  T  W  R  T  *  Q  V  Y  H  S  *  S  P  S  P  *  A  Q  Q  K  P  L  G  L  Q  Q  G  P :   G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L  G  D  S  P  E  N  G  P  K  Y  L  T  R  S  G  P  Y  H  G  L  P  E  E  A  G  L  G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  A  S  F  T  V  F  P  A  K  V  E  E  E  R  A  I  V  E  A  A  M  V  *  F  *  *  I  K  R  N  E  L  C  F  D  G   </second_frame>
            <third_frame>   K  E  S  K  H  G  E  H  S  K  S  T  I  L  D  L  L  H  L  E  L  S  K  S  L  W  V  F  S  K  A   : Q  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  V  I  H  Q  R  M  G  P  S  T  *  H  G  Q  D  H  T  M  G  Y  Q  R  K  L  A  W  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  S  F  R  R  R  *  R  R  K  E  P  L  *  K  Q  P  W  F  N  F  N  K  *  K  E  M  N  C  V  L  M  V  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="46125" stop="46030"/>
                    <exon start="45979" stop="45692"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>381</number_coding_nucleotides>
                  <number_encoded_amino_acids>127</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TKNPNMENIASLPFLISFTLSSAKASGSSARPRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45631" stop="45404"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>225</number_coding_nucleotides>
                  <number_encoded_amino_acids>75</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FTREWAQVLNTVRTIPWATRGSWLGLGSSLPHCNSPISTDFRRRWCEFHRLSGEGRGGKSHCRSSHGLILINKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="46384" e_stop="46168"/>
            <exon e_start="46059" e_stop="45386"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.964" acc_prob="0.000" e_score="0.968"/>
          <exon-only e_score="0.983"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.968">
            <gDNA_exon_boundary e_start="46384" e_stop="46168" e_length="217"/>
          </exon>
          <intron i_serial="1" don_prob="0.964" acc_prob="0.000">
            <gDNA_intron_boundary i_start="46167" i_stop="46060" i_length="108"/>
          </intron>
          <exon e_serial="2" e_score="0.983">
            <gDNA_exon_boundary e_start="46059" e_stop="45386" e_length="674"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46384" stop="46168"/>
              <exon start="46059" stop="45413"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E726222" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45946" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347706" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45924" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293542" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45884" stop="45399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294890" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45853" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223169" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45838" stop="45475"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45809" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280151" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45805" stop="45505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278398" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45802" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279358" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45801" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45767" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223668" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45759" stop="45386"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279163" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45755" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279177" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45729" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237304" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45669" stop="45433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280772" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCG : GCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTGGTGATTCACCAGAGAATGGGCCCAAGTACTTAACACGGTCAGGACCATACCATGGGCTACCAGAGGAAGCTGGCTTGGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGTGTTTTGATGGTTG</gDNA_template>
            <first_frame> H  *  L  I  Q  T  N  L  Q  *  S  C  T  E  P  I  T  Q  N  A  L  K  N  *  P  L  L  Q  I  H  L  S  Q  S  *  K  L  I  I  S  H  *  L  E  K  S  L  L  H  S  L  S  G  N  K  V  C  G  K  S  P  G  V  V  V  N  W  V  S  N  V  V   : G  K  S  L  W  V  F  S  K  A  Q  W  V  K  A  T  T  R  V  K  W  I  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W  *  F  T  R  E  W  A  Q  V  L  N  T  V  R  T  I  P  W  A  T  R  G  S  W  L  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  C  E  F  H  R  L  S  G  E  G  R  G  G  K  S  H  C  R  S  S  H  G  L  I  L  I  N  K  K  K  *  I  V  F  *  W  L </first_frame>
            <second_frame>  I  N  *  S  K  P  I  Y  N  N  L  V  L  N  P  *  P  R  M  L  *  K  T  D  P  F  Y  R  F  I  S  H  K  A  K  N  S  *  S  H  T  N  W  R  R  V  C  C  T  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  M  W  S  :  A  K  A  S  G  S  S  A  R  P  N  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L  G  D  S  P  E  N  G  P  K  Y  L  T  R  S  G  P  Y  H  G  L  P  E  E  A  G  L  G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  A  S  F  T  V  F  P  A  K  V  E  E  E  R  A  I  V  E  A  A  M  V  *  F  *  *  I  K  R  N  E  L  C  F  D  G   </second_frame>
            <third_frame>   L  I  N  P  N  Q  F  T  I  I  L  Y  *  T  H  N  P  E  C  F  K  K  L  T  P  S  T  D  S  S  L  T  K  L  K  T  H  N  L  T  L  I  G  E  E  F  V  A  L  T  F  R  E  Q  S  L  W  Q  K  P  R  R  C  C  *  L  G  Q  Q  C  G  R :   Q  K  P  L  G  L  Q  Q  G  P  M  G  Q  S  Y  H  Q  G  K  V  D  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  V  I  H  Q  R  M  G  P  S  T  *  H  G  Q  D  H  T  M  G  Y  Q  R  K  L  A  W  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  S  F  R  R  R  *  R  R  K  E  P  L  *  K  Q  P  W  F  N  F  N  K  *  K  E  M  N  C  V  L  M  V  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="46258" stop="46168"/>
                    <exon start="46059" stop="45692"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>456</number_coding_nucleotides>
                  <number_encoded_amino_acids>152</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LEKSLLHSLSGNKVCGKSPGVVVNWVSNVVGKSLWVFSKAQWVKATTRVKWINNLTKRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="3" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45631" stop="45404"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>225</number_coding_nucleotides>
                  <number_encoded_amino_acids>75</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FTREWAQVLNTVRTIPWATRGSWLGLGSSLPHCNSPISTDFRRRWCEFHRLSGEGRGGKSHCRSSHGLILINKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="46406" e_stop="45636"/>
            <exon e_start="45559" e_stop="45399"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.994"/>
          <exon-only e_score="0.981"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="46406" e_stop="45636" e_length="771"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="45635" i_stop="45560" i_length="76"/>
          </intron>
          <exon e_serial="2" e_score="0.981">
            <gDNA_exon_boundary e_start="45559" e_stop="45399" e_length="161"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46406" stop="46016"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281039" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46237" stop="45764"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277134" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46237" stop="45838"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318674" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46190" stop="45971"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="46141" stop="45636"/>
              <exon start="45559" stop="45399"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E347883" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="4" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCTTGTGCAAGATGAAAAGATTCATTAATTAATCCAAACCAATTTACAATAATCTTGTACTGAACCCATAACCCAGAATGCTTTAAAAAACTGACCCCTTCTACAGATTCATCTCTCACAAAGCTAAAAACTCATAATCTCACACTAATTGGAGAAGAGTTTGTTGCACTCACTTTCCGGGAACAAAGTTTGTGGCAAAAGCCCAGGCGTTGTTGTTAACTGGGTCAGCAATGTGGTCGGCAAGGTTCTCCAACGGACCCTTTCCGGTGACAATAGCTTGAACAAAGAATCCAAACATGGAGAACATAGCAAGTCTACCATTCTTGATCTCCTTCACCTTGAGCTCAGCAAAAGCCTCTGGGTCTTCAGCAAGGCCCAATGGGTCAAAGCTACCACCAGGGTAAAGTGGATCAACAACCTCACCAAGAGGCCCACCAGCAATACGGTAACCCTCAACGGCTCCCATCAACACAACTTGGCAAGCCCAAATAGCCAAAATGCTTTGTGCATGAACCAAACTAGGGTTTCCCAAGTAGTCAAGTCCGCCCTCGCTGAAAATTTGAGATCCAGCTTTGAACCATACAGCTTCACCAAACTTAACACCGTTACGTGCCAAAAGCTCGGGGAAAACACATCCAAGAGCACCAAGCATGGCCCATCTGCAATGAATAACCTCCAACTCACGGTTCTTAGCGAATGTTTCAGGGTCAGCTGAAAGCCCAGCAGTGTCCCATCCGTAATCACCAGGGAACTCACCAGTCAAATAGCTTG : GGGCTTGGCAGCAGTCTTCCTCATTGTAATTCTCCCATTTCCACTGATTTCAGAAGAAGATGGTGCGAGTTTCACCGTCTTTCCGGCGAAGGTAGAGGAGGAAAGAGCCATTGTAGAAGCAGCCATGGTTTAATTTTAATAAATAAAAAGAAATGAATTGT</gDNA_template>
            <first_frame> A  C  A  R  *  K  D  S  L  I  N  P  N  Q  F  T  I  I  L  Y  *  T  H  N  P  E  C  F  K  K  L  T  P  S  T  D  S  S  L  T  K  L  K  T  H  N  L  T  L  I  G  E  E  F  V  A  L  T  F  R  E  Q  S  L  W  Q  K  P  R  R  C  C  *  L  G  Q  Q  C  G  R  Q  G  S  P  T  D  P  F  R  *  Q  *  L  E  Q  R  I  Q  T  W  R  T  *  Q  V  Y  H  S  *  S  P  S  P  *  A  Q  Q  K  P  L  G  L  Q  Q  G  P  M  G  Q  S  Y  H  Q  G  K  V  D  Q  Q  P  H  Q  E  A  H  Q  Q  Y  G  N  P  Q  R  L  P  S  T  Q  L  G  K  P  K  *  P  K  C  F  V  H  E  P  N  *  G  F  P  S  S  Q  V  R  P  R  *  K  F  E  I  Q  L  *  T  I  Q  L  H  Q  T  *  H  R  Y  V  P  K  A  R  G  K  H  I  Q  E  H  Q  A  W  P  I  C  N  E  *  P  P  T  H  G  S  *  R  M  F  Q  G  Q  L  K  A  Q  Q  C  P  I  R  N  H  Q  G  T  H  Q  S  N  S  L  :  G  L  G  S  S  L  P  H  C  N  S  P  I  S  T  D  F  R  R  R  W  C  E  F  H  R  L  S  G  E  G  R  G  G  K  S  H  C  R  S  S  H  G  L  I  L  I  N  K  K  K  *  I   </first_frame>
            <second_frame>  L  V  Q  D  E  K  I  H  *  L  I  Q  T  N  L  Q  *  S  C  T  E  P  I  T  Q  N  A  L  K  N  *  P  L  L  Q  I  H  L  S  Q  S  *  K  L  I  I  S  H  *  L  E  K  S  L  L  H  S  L  S  G  N  K  V  C  G  K  S  P  G  V  V  V  N  W  V  S  N  V  V  G  K  V  L  Q  R  T  L  S  G  D  N  S  L  N  K  E  S  K  H  G  E  H  S  K  S  T  I  L  D  L  L  H  L  E  L  S  K  S  L  W  V  F  S  K  A  Q  W  V  K  A  T  T  R  V  K  W  I  N  N  L  T  K  R  P  T  S  N  T  V  T  L  N  G  S  H  Q  H  N  L  A  S  P  N  S  Q  N  A  L  C  M  N  Q  T  R  V  S  Q  V  V  K  S  A  L  A  E  N  L  R  S  S  F  E  P  Y  S  F  T  K  L  N  T  V  T  C  Q  K  L  G  E  N  T  S  K  S  T  K  H  G  P  S  A  M  N  N  L  Q  L  T  V  L  S  E  C  F  R  V  S  *  K  P  S  S  V  P  S  V  I  T  R  E  L  T  S  Q  I  A  W :   G  L  A  A  V  F  L  I  V  I  L  P  F  P  L  I  S  E  E  D  G  A  S  F  T  V  F  P  A  K  V  E  E  E  R  A  I  V  E  A  A  M  V  *  F  *  *  I  K  R  N  E  L  </second_frame>
            <third_frame>   L  C  K  M  K  R  F  I  N  *  S  K  P  I  Y  N  N  L  V  L  N  P  *  P  R  M  L  *  K  T  D  P  F  Y  R  F  I  S  H  K  A  K  N  S  *  S  H  T  N  W  R  R  V  C  C  T  H  F  P  G  T  K  F  V  A  K  A  Q  A  L  L  L  T  G  S  A  M  W  S  A  R  F  S  N  G  P  F  P  V  T  I  A  *  T  K  N  P  N  M  E  N  I  A  S  L  P  F  L  I  S  F  T  L  S  S  A  K  A  S  G  S  S  A  R  P  N  G  S  K  L  P  P  G  *  S  G  S  T  T  S  P  R  G  P  P  A  I  R  *  P  S  T  A  P  I  N  T  T  W  Q  A  Q  I  A  K  M  L  C  A  *  T  K  L  G  F  P  K  *  S  S  P  P  S  L  K  I  *  D  P  A  L  N  H  T  A  S  P  N  L  T  P  L  R  A  K  S  S  G  K  T  H  P  R  A  P  S  M  A  H  L  Q  *  I  T  S  N  S  R  F  L  A  N  V  S  G  S  A  E  S  P  A  V  S  H  P  *  S  P  G  N  S  P  V  K  *  L   : G  A  W  Q  Q  S  S  S  L  *  F  S  H  F  H  *  F  Q  K  K  M  V  R  V  S  P  S  F  R  R  R  *  R  R  K  E  P  L  *  K  Q  P  W  F  N  F  N  K  *  K  E  M  N  C </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="46258" stop="45692"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>564</number_coding_nucleotides>
                  <number_encoded_amino_acids>188</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LEKSLLHSLSGNKVCGKSPGVVVNWVSNVVGKVLQRTLSGDNSLNKESKHGEHSKSTILDLLHLELSKSLWVFSKAQWVKATTRVKWINNLTKRPTSNTVTLNGSHQHNLASPNSQNALCMNQTRVSQVVKSALAENLRSSFEPYSFTKLNTVTCQKLGENTSKSTKHGPSAMNNLQLTVLSECFRVS*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="10" AGS_serial="4" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45713" stop="45636"/>
                    <exon start="45559" stop="45404"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>231</number_coding_nucleotides>
                  <number_encoded_amino_acids>77</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RMFQGQLKAQQCPIRNHQGTHQSNSLGLGSSLPHCNSPISTDFRRRWCEFHRLSGEGRGGKSHCRSSHGLILINKKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="11" PGL_strand="-" PGL_start="52615" PGL_stop="46814"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="52615" e_stop="52412"/>
            <exon e_start="51888" e_stop="51621"/>
            <exon e_start="49904" e_stop="49749"/>
            <exon e_start="48426" e_stop="47965"/>
            <exon e_start="47430" e_stop="46814"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.977" e_score="0.995"/>
          <exon-intron don_prob="0.983" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.992" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.486" e_score="0.998"/>
          <exon-only e_score="0.982"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="52615" e_stop="52412" e_length="204"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.977">
            <gDNA_intron_boundary i_start="52411" i_stop="51889" i_length="523"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="51888" e_stop="51621" e_length="268"/>
          </exon>
          <intron i_serial="2" don_prob="0.983" acc_prob="0.988">
            <gDNA_intron_boundary i_start="51620" i_stop="49905" i_length="1716"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="49904" e_stop="49749" e_length="156"/>
          </exon>
          <intron i_serial="3" don_prob="0.992" acc_prob="0.996">
            <gDNA_intron_boundary i_start="49748" i_stop="48427" i_length="1322"/>
          </intron>
          <exon e_serial="4" e_score="0.998">
            <gDNA_exon_boundary e_start="48426" e_stop="47965" e_length="462"/>
          </exon>
          <intron i_serial="4" don_prob="0.990" acc_prob="0.486">
            <gDNA_intron_boundary i_start="47964" i_stop="47431" i_length="534"/>
          </intron>
          <exon e_serial="5" e_score="0.982">
            <gDNA_exon_boundary e_start="47430" e_stop="46814" e_length="617"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52615" stop="52412"/>
              <exon start="51888" stop="51621"/>
              <exon start="49904" stop="49870"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E269418" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49874" stop="49749"/>
              <exon start="48426" stop="47965"/>
              <exon start="47430" stop="47325"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370937" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49874" stop="49749"/>
              <exon start="48426" stop="48086"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271227" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49839" stop="49749"/>
              <exon start="48426" stop="48051"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E203888" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48426" stop="47965"/>
              <exon start="47430" stop="47145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727940" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48080" stop="47965"/>
              <exon start="47430" stop="46814"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370936" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="47395" stop="46936"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299168" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GGGTTTGCCATCTGATGGGGATAGTCCATCTGTTGTGATTCCAGACCATCTTCAAGTTCAAACAGCTGACTGCTCACACCTAAGTTTTGGTAGCTTTGGTGGTGTGTCCTTCTCTGGATCACTGGCCTCTGCCCCCGTGAAAACTAGCTTGGAAGATGCATCCAGAGATGCAGATAGTTCTTCAGTTGGGCACTTGGGCACCAG : GGCCACTGAATACTATGGTGATGGTACTCTCAGAAATGAGGCTGATAGTAATTTATTCCACAGAAATAATGCAAATGCTGGAAATTATGAACTGCCAGCAGCTTCACAACCAGAATCTCTGAAAGCAGAAGCTAGTGATGGGCATTATTCATATCCGTCCTCTGCTGCTGGCTATTCATACGAAAGTGCTCAACAATTGAATGCAGCGTTTAGTCAGCCACAGACGAGTTCTCATATGCAAAATCTTGCTTCTTTCTCAAATGAGACA : GTCTACACAAATTCTTTGCAGAGTGACATGTTGACTGCTAACGTGCATCCTGGTCGAGAGTCTGAGCTTTCATATTCTCCTTTTTCTACAACACAAGCAATGCCCACAAAATATGGCAACTCAATTTCATCAATCAGTGGTTCAGCTATGCCTGAG : GCTATGAAGACAGTTGGCTTTTCATCAGCACAGCCTACTCAGCAGATGCTTTCTGGAAATAGTGTCGCCACAGGACCTGGCGTACCACAACACCTAACTGTACACCAATATTCTCAACAAGCTGTTCCTATTGCCCCATATGGCAACATGATTAGTTATCCCTTTGTGCCTCAGAACTATTCATATATTCCATCTGCATTCCAACAAGCATATCCTGGTAATAGCAGTTACCATCAGTCGCTTGCAGCAATGCTCCCCCAATATAAGAATACCGTTTCTGCCAGCAGCTTGCCTCAATCTGCCACTATTCCTTCTGGATATGGTGCTTTTGGAAATACAACAAGTATCCCCGGGAACTTCCCAATCAACCCCCCTGCTGCTCCATCTGGTACTAACTTAAGTTACGATGATGTATTAAGTGCTCAGTTCAAGGATACCAATCATTTGATGTCTCTTCAGCAG : AATGAGAACTCAGCTTTGTGGCTTCATGGACATGGTTCAAGAACAATGCCAACTGTTCCCGCCAACACGTATTATGGCTTTCAGGGACAGAATCAGCAAACGGGCGGATTTAGGCAAGGCCAACAGCCATCACAGAGCTATGGATCTTTGGGGGGCTACCCACATTTCTACAATTCTCAGGCTGGTATCTCGTTGGACCAACAACAGCAAGAAAACCTTCGAGATGGATCGTTGTCTGGTTCACAAGGCCAGCCAAAGCAGTCTCAACAACAGTTATGGCAAAACGGCTACTAAATCTTACTGCCTCCCTTGTTTTTCTGTTCTTTCTTTTTTTGGGGTCTTGTAATGAGTGTGAAAGTGGCCTTTCCAGCTCTCTCTGTTGAAATAACCCTCGTTCACGATCCCTGAAGAAACTTGACTGGGTGCTGCCCTGTGCCATGACTCTGTACTTTACGTGTTTATCTCAGATTTAAATGTAACGTAGGTAATGTCTGAGTTAACACAGTGCTCTAGTCGTCTCGTCTGTGTTTTTTCTTTTAGCTCTTGTTTAACACGGTTAACCCCCCTTTTCGTCGTTTTTAATCTATAGTTGCTAGTGTTTTTTTCCCAATAGTAAT</gDNA_template>
            <first_frame> G  F  A  I  *  W  G  *  S  I  C  C  D  S  R  P  S  S  S  S  N  S  *  L  L  T  P  K  F  W  *  L  W  W  C  V  L  L  W  I  T  G  L  C  P  R  E  N  *  L  G  R  C  I  Q  R  C  R  *  F  F  S  W  A  L  G  H  Q  :  G  H  *  I  L  W  *  W  Y  S  Q  K  *  G  *  *  *  F  I  P  Q  K  *  C  K  C  W  K  L  *  T  A  S  S  F  T  T  R  I  S  E  S  R  S  *  *  W  A  L  F  I  S  V  L  C  C  W  L  F  I  R  K  C  S  T  I  E  C  S  V  *  S  A  T  D  E  F  S  Y  A  K  S  C  F  F  L  K  *  D   : S  L  H  K  F  F  A  E  *  H  V  D  C  *  R  A  S  W  S  R  V  *  A  F  I  F  S  F  F  Y  N  T  S  N  A  H  K  I  W  Q  L  N  F  I  N  Q  W  F  S  Y  A  *   : G  Y  E  D  S  W  L  F  I  S  T  A  Y  S  A  D  A  F  W  K  *  C  R  H  R  T  W  R  T  T  T  P  N  C  T  P  I  F  S  T  S  C  S  Y  C  P  I  W  Q  H  D  *  L  S  L  C  A  S  E  L  F  I  Y  S  I  C  I  P  T  S  I  S  W  *  *  Q  L  P  S  V  A  C  S  N  A  P  P  I  *  E  Y  R  F  C  Q  Q  L  A  S  I  C  H  Y  S  F  W  I  W  C  F  W  K  Y  N  K  Y  P  R  E  L  P  N  Q  P  P  C  C  S  I  W  Y  *  L  K  L  R  *  C  I  K  C  S  V  Q  G  Y  Q  S  F  D  V  S  S  A   : E  *  E  L  S  F  V  A  S  W  T  W  F  K  N  N  A  N  C  S  R  Q  H  V  L  W  L  S  G  T  E  S  A  N  G  R  I  *  A  R  P  T  A  I  T  E  L  W  I  F  G  G  L  P  T  F  L  Q  F  S  G  W  Y  L  V  G  P  T  T  A  R  K  P  S  R  W  I  V  V  W  F  T  R  P  A  K  A  V  S  T  T  V  M  A  K  R  L  L  N  L  T  A  S  L  V  F  L  F  F  L  F  L  G  S  C  N  E  C  E  S  G  L  S  S  S  L  C  *  N  N  P  R  S  R  S  L  K  K  L  D  W  V  L  P  C  A  M  T  L  Y  F  T  C  L  S  Q  I  *  M  *  R  R  *  C  L  S  *  H  S  A  L  V  V  S  S  V  F  F  L  L  A  L  V  *  H  G  *  P  P  F  S  S  F  L  I  Y  S  C  *  C  F  F  P  N  S  N </first_frame>
            <second_frame>  G  L  P  S  D  G  D  S  P  S  V  V  I  P  D  H  L  Q  V  Q  T  A  D  C  S  H  L  S  F  G  S  F  G  G  V  S  F  S  G  S  L  A  S  A  P  V  K  T  S  L  E  D  A  S  R  D  A  D  S  S  S  V  G  H  L  G  T  R :   A  T  E  Y  Y  G  D  G  T  L  R  N  E  A  D  S  N  L  F  H  R  N  N  A  N  A  G  N  Y  E  L  P  A  A  S  Q  P  E  S  L  K  A  E  A  S  D  G  H  Y  S  Y  P  S  S  A  A  G  Y  S  Y  E  S  A  Q  Q  L  N  A  A  F  S  Q  P  Q  T  S  S  H  M  Q  N  L  A  S  F  S  N  E  T  :  V  Y  T  N  S  L  Q  S  D  M  L  T  A  N  V  H  P  G  R  E  S  E  L  S  Y  S  P  F  S  T  T  Q  A  M  P  T  K  Y  G  N  S  I  S  S  I  S  G  S  A  M  P  E  :  A  M  K  T  V  G  F  S  S  A  Q  P  T  Q  Q  M  L  S  G  N  S  V  A  T  G  P  G  V  P  Q  H  L  T  V  H  Q  Y  S  Q  Q  A  V  P  I  A  P  Y  G  N  M  I  S  Y  P  F  V  P  Q  N  Y  S  Y  I  P  S  A  F  Q  Q  A  Y  P  G  N  S  S  Y  H  Q  S  L  A  A  M  L  P  Q  Y  K  N  T  V  S  A  S  S  L  P  Q  S  A  T  I  P  S  G  Y  G  A  F  G  N  T  T  S  I  P  G  N  F  P  I  N  P  P  A  A  P  S  G  T  N  L  S  Y  D  D  V  L  S  A  Q  F  K  D  T  N  H  L  M  S  L  Q  Q  :  N  E  N  S  A  L  W  L  H  G  H  G  S  R  T  M  P  T  V  P  A  N  T  Y  Y  G  F  Q  G  Q  N  Q  Q  T  G  G  F  R  Q  G  Q  Q  P  S  Q  S  Y  G  S  L  G  G  Y  P  H  F  Y  N  S  Q  A  G  I  S  L  D  Q  Q  Q  Q  E  N  L  R  D  G  S  L  S  G  S  Q  G  Q  P  K  Q  S  Q  Q  Q  L  W  Q  N  G  Y  *  I  L  L  P  P  L  F  F  C  S  F  F  F  W  G  L  V  M  S  V  K  V  A  F  P  A  L  S  V  E  I  T  L  V  H  D  P  *  R  N  L  T  G  C  C  P  V  P  *  L  C  T  L  R  V  Y  L  R  F  K  C  N  V  G  N  V  *  V  N  T  V  L  *  S  S  R  L  C  F  F  F  *  L  L  F  N  T  V  N  P  P  F  R  R  F  *  S  I  V  A  S  V  F  F  P  I  V   </second_frame>
            <third_frame>   V  C  H  L  M  G  I  V  H  L  L  *  F  Q  T  I  F  K  F  K  Q  L  T  A  H  T  *  V  L  V  A  L  V  V  C  P  S  L  D  H  W  P  L  P  P  *  K  L  A  W  K  M  H  P  E  M  Q  I  V  L  Q  L  G  T  W  A  P   : G  P  L  N  T  M  V  M  V  L  S  E  M  R  L  I  V  I  Y  S  T  E  I  M  Q  M  L  E  I  M  N  C  Q  Q  L  H  N  Q  N  L  *  K  Q  K  L  V  M  G  I  I  H  I  R  P  L  L  L  A  I  H  T  K  V  L  N  N  *  M  Q  R  L  V  S  H  R  R  V  L  I  C  K  I  L  L  L  S  Q  M  R  Q :   S  T  Q  I  L  C  R  V  T  C  *  L  L  T  C  I  L  V  E  S  L  S  F  H  I  L  L  F  L  Q  H  K  Q  C  P  Q  N  M  A  T  Q  F  H  Q  S  V  V  Q  L  C  L  R :   L  *  R  Q  L  A  F  H  Q  H  S  L  L  S  R  C  F  L  E  I  V  S  P  Q  D  L  A  Y  H  N  T  *  L  Y  T  N  I  L  N  K  L  F  L  L  P  H  M  A  T  *  L  V  I  P  L  C  L  R  T  I  H  I  F  H  L  H  S  N  K  H  I  L  V  I  A  V  T  I  S  R  L  Q  Q  C  S  P  N  I  R  I  P  F  L  P  A  A  C  L  N  L  P  L  F  L  L  D  M  V  L  L  E  I  Q  Q  V  S  P  G  T  S  Q  S  T  P  L  L  L  H  L  V  L  T  *  V  T  M  M  Y  *  V  L  S  S  R  I  P  I  I  *  C  L  F  S  R :   M  R  T  Q  L  C  G  F  M  D  M  V  Q  E  Q  C  Q  L  F  P  P  T  R  I  M  A  F  R  D  R  I  S  K  R  A  D  L  G  K  A  N  S  H  H  R  A  M  D  L  W  G  A  T  H  I  S  T  I  L  R  L  V  S  R  W  T  N  N  S  K  K  T  F  E  M  D  R  C  L  V  H  K  A  S  Q  S  S  L  N  N  S  Y  G  K  T  A  T  K  S  Y  C  L  P  C  F  S  V  L  S  F  F  G  V  L  *  *  V  *  K  W  P  F  Q  L  S  L  L  K  *  P  S  F  T  I  P  E  E  T  *  L  G  A  A  L  C  H  D  S  V  L  Y  V  F  I  S  D  L  N  V  T  *  V  M  S  E  L  T  Q  C  S  S  R  L  V  C  V  F  S  F  S  S  C  L  T  R  L  T  P  L  F  V  V  F  N  L  *  L  L  V  F  F  S  Q  *  *  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="-"/>
                <serials PGL_serial="11" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="52614" stop="52412"/>
                    <exon start="51888" stop="51621"/>
                    <exon start="49904" stop="49749"/>
                    <exon start="48426" stop="47965"/>
                    <exon start="47430" stop="47137"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1380</number_coding_nucleotides>
                  <number_encoded_amino_acids>460</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GLPSDGDSPSVVIPDHLQVQTADCSHLSFGSFGGVSFSGSLASAPVKTSLEDASRDADSSSVGHLGTRATEYYGDGTLRNEADSNLFHRNNANAGNYELPAASQPESLKAEASDGHYSYPSSAAGYSYESAQQLNAAFSQPQTSSHMQNLASFSNETVYTNSLQSDMLTANVHPGRESELSYSPFSTTQAMPTKYGNSISSISGSAMPEAMKTVGFSSAQPTQQMLSGNSVATGPGVPQHLTVHQYSQQAVPIAPYGNMISYPFVPQNYSYIPSAFQQAYPGNSSYHQSLAAMLPQYKNTVSASSLPQSATIPSGYGAFGNTTSIPGNFPINPPAAPSGTNLSYDDVLSAQFKDTNHLMSLQQNENSALWLHGHGSRTMPTVPANTYYGFQGQNQQTGGFRQGQQPSQSYGSLGGYPHFYNSQAGISLDQQQQENLRDGSLSGSQGQPKQSQQQLWQNGY*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="12" PGL_strand="+" PGL_start="62954" PGL_stop="64636"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62954" e_stop="63005"/>
            <exon e_start="64205" e_stop="64636"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.993"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="62954" e_stop="63005" e_length="52"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="63006" i_stop="64204" i_length="1199"/>
          </intron>
          <exon e_serial="2" e_score="0.993">
            <gDNA_exon_boundary e_start="64205" e_stop="64636" e_length="432"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62954" stop="63005"/>
              <exon start="64205" stop="64636"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E713503" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62961" stop="63005"/>
              <exon start="64205" stop="64636"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E716777" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62980" stop="63005"/>
              <exon start="64205" stop="64636"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723949" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62981" stop="63005"/>
              <exon start="64205" stop="64634"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E351828" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62981" stop="63005"/>
              <exon start="64205" stop="64624"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356430" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATTTTACTTTTCTTTTACCTCCTCCTCTCTTCTCCGTCTTCAATCGCCGCCG : ATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</gDNA_template>
            <first_frame> I  L  L  F  F  Y  L  L  L  S  S  P  S  S  I  A  A   : D  G  L  A  R  T  K  A  R  G  T  I  D  A  D  T  A  C  E  L  W  C  G  S  I  P  H  R  L  Y  V  G  L  V  P  N  Y  A  V  N  I  R  W  W  C  C  L  Y  G  P  S  H  H  T  *  L  A  C  L  *  S  Q  P  S  Q  L  V  G  P  K  C  S  R  E  V  S  Q  T  T  A  C  Y  Y  W  F  Q  E  E  E  H  *  E  V  G  H  L  T  D  I  P  L  T  F  H  L  V  F  L  Q  K  T  I  M  M  Y  Q  I  Q  S  V  V  F  W  Y  E  L  N  V  L  C  S  R  *  I  L  S  V  L  *  E  R  F  S  F  </first_frame>
            <second_frame>  F  Y  F  S  F  T  S  S  S  L  L  R  L  Q  S  P  P  :  M  D  W  Q  G  Q  K  L  V  E  Q  L  M  Q  I  L  L  V  S  F  G  V  V  A  F  L  T  G  Y  M  L  G  S  F  Q  T  M  L  L  T  Y  A  G  G  V  V  F  T  A  L  L  T  I  P  N  W  P  V  Y  N  R  N  P  L  N  W  L  D  P  S  V  V  E  K  Y  P  K  P  L  P  A  T  T  G  S  K  K  K  S  T  K  K  *  V  I  *  L  I  F  R  *  H  F  T  W  S  F  Y  R  K  L  L  *  C  I  K  Y  S  R  W  F  F  G  M  S  *  T  F  Y  A  L  G  E  F  C  Q  C  Y  K  K  D  L  V  L </second_frame>
            <third_frame>   F  T  F  L  L  P  P  P  L  F  S  V  F  N  R  R  R :   W  I  G  K  D  K  S  S  W  N  N  *  C  R  Y  C  L  *  A  L  V  W  *  H  S  S  Q  A  I  C  W  A  R  S  K  L  C  C  *  H  T  L  V  V  L  S  L  R  P  F  S  P  Y  L  T  G  L  S  I  I  A  T  L  S  I  G  W  T  Q  V  *  S  R  S  I  P  N  H  C  L  L  L  L  V  P  R  R  R  A  L  R  S  R  S  F  D  *  Y  S  A  D  I  S  L  G  L  S  T  E  N  Y  Y  D  V  S  N  T  V  G  G  F  L  V  *  A  E  R  F  M  L  S  V  N  F  V  S  A  I  R  K  I  *  F   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="12" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="62955" stop="63005"/>
                    <exon start="64205" stop="64483"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>327</number_coding_nucleotides>
                  <number_encoded_amino_acids>109</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FYFSFTSSSLLRLQSPPMDWQGQKLVEQLMQILLVSFGVVAFLTGYMLGSFQTMLLTYAGGVVFTALLTIPNWPVYNRNPLNWLDPSVVEKYPKPLPATTGSKKKSTKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="64201" e_stop="64636"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="64201" e_stop="64636" e_length="436"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64201" stop="64636"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E225585" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTAGATGGATTGGCAAGGACAAAAGCTCGTGGAACAATTGATGCAGATACTGCTTGTGAGCTTTGGTGTGGTAGCATTCCTCACAGGCTATATGTTGGGCTCGTTCCAAACTATGCTGTTAACATACGCTGGTGGTGTTGTCTTTACGGCCCTTCTCACCATACCTAACTGGCCTGTCTATAATCGCAACCCTCTCAATTGGTTGGACCCAAGTGTAGTCGAGAAGTATCCCAAACCACTGCCTGCTACTACTGGTTCCAAGAAGAAGAGCACTAAGAAGTAGGTCATTTGACTGATATTCCGCTGACATTTCACTTGGTCTTTCTACAGAAAACTATTATGATGTATCAAATACAGTCGGTGGTTTTTTGGTATGAGCTGAACGTTTTATGCTCTCGGTGAATTTTGTCAGTGCTATAAGAAAGATTTAGTTTTG</gDNA_template>
            <first_frame> V  D  G  L  A  R  T  K  A  R  G  T  I  D  A  D  T  A  C  E  L  W  C  G  S  I  P  H  R  L  Y  V  G  L  V  P  N  Y  A  V  N  I  R  W  W  C  C  L  Y  G  P  S  H  H  T  *  L  A  C  L  *  S  Q  P  S  Q  L  V  G  P  K  C  S  R  E  V  S  Q  T  T  A  C  Y  Y  W  F  Q  E  E  E  H  *  E  V  G  H  L  T  D  I  P  L  T  F  H  L  V  F  L  Q  K  T  I  M  M  Y  Q  I  Q  S  V  V  F  W  Y  E  L  N  V  L  C  S  R  *  I  L  S  V  L  *  E  R  F  S  F  </first_frame>
            <second_frame>  *  M  D  W  Q  G  Q  K  L  V  E  Q  L  M  Q  I  L  L  V  S  F  G  V  V  A  F  L  T  G  Y  M  L  G  S  F  Q  T  M  L  L  T  Y  A  G  G  V  V  F  T  A  L  L  T  I  P  N  W  P  V  Y  N  R  N  P  L  N  W  L  D  P  S  V  V  E  K  Y  P  K  P  L  P  A  T  T  G  S  K  K  K  S  T  K  K  *  V  I  *  L  I  F  R  *  H  F  T  W  S  F  Y  R  K  L  L  *  C  I  K  Y  S  R  W  F  F  G  M  S  *  T  F  Y  A  L  G  E  F  C  Q  C  Y  K  K  D  L  V  L </second_frame>
            <third_frame>   R  W  I  G  K  D  K  S  S  W  N  N  *  C  R  Y  C  L  *  A  L  V  W  *  H  S  S  Q  A  I  C  W  A  R  S  K  L  C  C  *  H  T  L  V  V  L  S  L  R  P  F  S  P  Y  L  T  G  L  S  I  I  A  T  L  S  I  G  W  T  Q  V  *  S  R  S  I  P  N  H  C  L  L  L  L  V  P  R  R  R  A  L  R  S  R  S  F  D  *  Y  S  A  D  I  S  L  G  L  S  T  E  N  Y  Y  D  V  S  N  T  V  G  G  F  L  V  *  A  E  R  F  M  L  S  V  N  F  V  S  A  I  R  K  I  *  F   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C00SLm0103M17.2" strand="+"/>
                <serials PGL_serial="12" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64205" stop="64483"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>276</number_coding_nucleotides>
                  <number_encoded_amino_acids>92</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>MDWQGQKLVEQLMQILLVSFGVVAFLTGYMLGSFQTMLLTYAGGVVFTALLTIPNWPVYNRNPLNWLDPSVVEKYPKPLPATTGSKKKSTKK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 3479 chains have been computed
$ 
$ memory statistics:
$ 1783384 bytes spliced alignments in total
$ 931 spliced alignments have been stored
$ 1915 bytes was the average size of a spliced alignment
$ 36536 bytes predicted gene locations in total
$ 12 predicted gene locations have been stored
$ 3044 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 3804 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:30:30
-->
