<?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="2009-01-14 17:44:50"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::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-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733802" ref_strand="+" ref_description="SGN-E733802 [LB10DH11]">
      <seq>cggttaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacacaaaattgtgtaaaattcatttatgttcatcccctctctctgcctttctcagttttcacatattcctttcaccttctgttcttacatgtaatctttaacaagttgagcaatacatgatttcaataccagctttgtccaattgctagatgttgtaaatgaaattgagcacctgtgtgtattgcattttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3958" stop="402"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3660" g_stop="3462" g_length="199"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="199" r_length="199" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="200" r_stop="283" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="284" r_stop="335" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="492" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="703" g_length="296"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="788" r_length="296" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="789" polyA_stop="799"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E733802" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>788</cumulative_length_of_scored_exons>
        <coverage percentage="0.986" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733802" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3660" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="703"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCACCTGTGTGTATTGCATTTTAAAAAA</genome_strand>
        <mrna_strand>CGGTTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCACCTGTGTGTATTGCATTTTAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E371646" ref_strand="-" ref_description="SGN-E371646 [TUS-29-E14](-)">
      <seq>ttttctgattctgatgatagcaaaatccatagctaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacacaaaattgtgtaaaattcatttatgttcatcccctctctctgcctttctcagttttcacatattcctttcaccttctgttcttacatgtaatctttaacaagttgagcaatacatgatttcaataccagctttgtccaattgctagatgttgtaaatgaaattgagcaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3989" stop="428"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3689" g_stop="3462" g_length="228"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="228" r_length="228" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="312" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="364" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="365" r_stop="521" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="725" g_length="274"/>
          <reference_exon_boundary r_type="cDNA" r_start="522" r_stop="795" r_length="274" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E371646" ref_strand="-">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371646" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="3689" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="725"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCACCT</genome_strand>
        <mrna_strand>TTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E371647" ref_strand="-" ref_description="SGN-E371647 [TUS-29-E14]">
      <seq>tcactttccgctttaaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacacaaaattgtgtaaaattcatttatgttcatcccctctctctgcctttctcagttttcacatattcctttcaccttctgttcttacatgtaatctttaacaagttgagcaatacatgatttcaataccagctttgtccaattgctagatgttgtaatgaaattgagcaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3911" stop="428"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3611" g_stop="3462" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="150" r_length="150" r_score="0.973"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="234" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="235" r_stop="286" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="443" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="725" g_length="274"/>
          <reference_exon_boundary r_type="cDNA" r_start="444" r_stop="716" r_length="273" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E371647" ref_strand="-">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>717</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371647" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="3611" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="725"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCACCT</genome_strand>
        <mrna_strand>TCACTTTCCGCTTTAAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGT-AATGAAATTGAGCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280591" ref_strand="+" ref_description="SGN-E280591 [cLER-1-D23]">
      <seq>tttttttgctcaatttcatttacaacatctagcaattggacaaagctggtattgaaatcatgtattgctcaacttgttaaagattacatgtaagaacagaaggtgaaaggaatatgtgaaaactgagaaaggcagagagaggggatgaacataaatgaattttacacaattttgtgtcaatatattcaggtcaaaatgacaggtcttctagacaataaacaagttgtggcatccatgctgagtattcttccatatataatcatcgaccttgaattccctgcgatcaaggtaccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="428" stop="1317"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="727" g_stop="1015" g_length="289"/>
          <reference_exon_boundary r_type="cDNA" r_start="6" r_stop="294" r_length="289" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E280591" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>289</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E280591" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="727" e_stop="1015"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGCTCAATTTCATTTACAACATCTAGCAATTGGACAAAGCTGGTATTGAAATCATGTATTGCTCAACTTGTTAAAGATTACATGTAAGAACAGAAGGTGAAAGGAATATGTGAAAACTGAGAAAGGCAGAGAGAGGGGATGAACATAAATGAATTTTACACAATTTTGTGTCAATATATTCAGGTCAAAATGACAGGTCTTCTAGACAATAAACAAGTTGTGGCATCCATGCTGAGTATTCTTCCATATCTAATCATCGTCCTTGAATTCCCTGTCGAGAAGAAGATG</genome_strand>
        <mrna_strand>TTGCTCAATTTCATTTACAACATCTAGCAATTGGACAAAGCTGGTATTGAAATCATGTATTGCTCAACTTGTTAAAGATTACATGTAAGAACAGAAGGTGAAAGGAATATGTGAAAACTGAGAAAGGCAGAGAGAGGGGATGAACATAAATGAATTTTACACAATTTTGTGTCAATATATTCAGGTCAAAATGACAGGTCTTCTAGACAATAAACAAGTTGTGGCATCCATGCTGAGTATTCTTCCATATATAATCATCGACCTTGAATTCCCTGCGATCAAGGTACCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728582" ref_strand="+" ref_description="SGN-E728582 [LA18BB08]">
      <seq>accagttggtgtcagtttcagaatttcttgtttttctgattctgatgatagcaaaatccatagctaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggttcttttctttctcaagttctctttttgtgtttttctccatgattattgtttaatttcagttgatctcatatgggttttttttattttttttttatttttggggaaattgtgatgtacttggcaggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcaaaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacacaaaattgtgtaaaattcatttatgttcatcccctctctctgcctttctcagttttcacatattcctttcaccttctgttcttacatgtaatctttaacaaggttgagcaatacctgattttcataaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="4020" stop="471"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3720" g_stop="3252" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="469" r_length="469" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="521" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="522" r_stop="678" r_length="157" r_score="0.994"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="998" g_stop="776" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="679" r_stop="902" r_length="224" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="905" polyA_stop="922"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E728582" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>901</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728582" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3720" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="776"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAGTTGGTGTCAGTTTCAGAATTTCTTGTTTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAA-GTTGAGCAATACATGATTT</genome_strand>
        <mrna_strand>ACCAGTTGGTGTCAGTTTCAGAATTTCTTGTTTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGGTTGAGCAATACCTGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295012" ref_strand="+" ref_description="SGN-E295012 [cLET-17-P20]">
      <seq>ttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaaatctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacacaaaattgtgtaaaattcatttatgttcatgcgctctctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3638" stop="555"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3475" g_stop="3462" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="14" r_length="14" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="98" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="150" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="307" r_length="157" r_score="0.994"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="855" g_length="144"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="451" r_length="144" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E295012" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>451</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295012" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3475" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="855"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCT</genome_strand>
        <mrna_strand>TTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAATCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATGCGCTCTCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E288337" ref_strand="+" ref_description="SGN-E288337 [cLES-16-L18]">
      <seq>gatagcaaaatccatagctaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatgccacaacttgtttattgtctagaagacctgtcattttgacctgaatatattgacac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3974" stop="595"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3674" g_stop="3462" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="213" r_length="213" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="297" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="298" r_stop="349" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="350" r_stop="506" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="895" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="507" r_stop="610" r_length="104" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E288337" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>610</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288337" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3674" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="895"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACAC</genome_strand>
        <mrna_strand>GATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293664" ref_strand="+" ref_description="SGN-E293664 [cLET-21-I1]">
      <seq>gatgatagcaaaatccatagctaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgataatgctgcaaaaagagagaacactcagccctgcttcccctgcactggcactggtgctcagaaatgcagattttgcatgggtactggcagtgtgacggtggagcttggagggggtgagacagaagtctctcggtgcatcaattgtgacggtgctggtggtttgacttgcacaacatgtcaaggcagtggcattcaacctcggtaccttgatcgcagggaattcaaggacgatgattagatatggaagaatactcagcatggatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3977" stop="651"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3677" g_stop="3462" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="216" r_length="216" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3252" g_length="84"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="300" r_length="84" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.957" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="2952" g_stop="2901" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="301" r_stop="352" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.945" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="1305" g_stop="1149" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="353" r_stop="509" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.648" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="998" g_stop="951" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="557" r_length="48" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E293664" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>557</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293664" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3677" e_stop="3462"/>
          <exon e_start="3335" e_stop="3252"/>
          <exon e_start="2952" e_stop="2901"/>
          <exon e_start="1305" e_stop="1149"/>
          <exon e_start="998" e_stop="951"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCTGTAAGTTTTAAGATTTAATTTTATGAAATATGCTCTTTTTTGTACCTTTCTTGATTATCCGGGATGCTACTTACGGGTTCTGCAGAGCTCAGTTGCTTGGTACAACTACAGTTTTTGTTACATTTCATTTCTCGAGAGTCGTTTGACTAATTTTCTAAGCTAAAGTATATAAGATTAATTTGATATTTTAAAATTAACTATGTTTGATATATAACTCTGTTTTCCTGGTCATTTTATTGCTTGACAATTCCTGCGATATATATCTCCGTTTTCATAGTTAAAGAATGTACATTTTGTAGGCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTCGTAAGTATTTCTTAAACTAGACTTTCCATTCTGTTGTTTCTTTATATGTTCGATCCGATAAGTACAAATGAGCCTAGAGGTATATTGTTATGTCCACAAGTGTACTTAAAATACATAATTGGTGGATGGCACTCAATTAAGAAATTTGAGCTGAATGGCTGCCAAAGAGCCGCAGAATTGTATTTCGGCTTAATTAAACTATATTGAGACAATTGCAATAAGTGAGAGTTTCCTGTTTGCCTTTGAACCCCCAGAACAGTTTCTTTTGAAAATATTTACTGGAAGCCAGTAGTTCTTGTTGTTGAAGGAGTGCATACATTGGTTCAACAACAACAAAAGTAGAGCCCGTGTTGTTGTATTTCTGATTTCCAGGTAAAGTTTTATTTGCCGTTTGCAGTGAGATATGGGAGAATATAGATTGTAGAATAAGGGCAGAAGTTTCAATATCCTCAAGATAAAACTATGAAGTACATGTTCTGATTTGTGCTTGGCTTCAGTTTTAGATGCTGTAGTACTTTCTGATGGTTTTTGGCCCATGAAGAACATTCATCAATCCTTGTTATCACTCGATTCTTTCTTACAAGTCTCAGGAAAATAACTCTTATGGTTCCTTCCTATATTCCAGTTTAAGACATAACTTGCACTTTGCTACGAATCTAGTCATTTGCTTGCCAGCCAAGAGAAACTAGACTATGGTTTGAGCTATCCACATCTCTTTATATTAGTGATGTTTTTGCTTGTATGCGTCATTTATCAACTTCCGTAAGTCCGAGCAAAGACACTAAACCCACATGTCAATTGCTTCCATGGATCTTAAGTTGACTTATTGAAATGGTCTAGTTTTGTATCACTTAAAATTGACATGTATGACTTGTTGATCAAAATATCTGACATGATGGATAGAGCAAATTGTGCATTTCTTAGAAATCCTTCCAAAATGCTCATAGTATGGATCTAGGATTTATTTTTTAATCACTTAATTCGTATGCCACTTCAAAGATGTCATTGTAGGTTGACGCCTATCCCTTAGCATGTCTCTAGTGCCTTTAAGGAATTTCTGGTTGCAGCTACTTACATCAATGACCAATTACCAATGAGCTTCTAGAAAATCCATGGCTCCGATCCAACAATTTTATTCAACTTGCAATTTACTCCTGGCTTGACTTAAATTTCTCCTTCTCATAGATACCGCCTTTGTAATTGGGAAGTGTTCTAATCCTGGCCCTAAGGTGGTTCTATCTGCTGTGGTGTTTTTGATCATCGAAGAGAGCGACGAAGAGAAGGGTGATTTATGATTTGACGTTTTTGTTTTTCTAAAATTTGCTAGGTGAATAATCTTGAAGTTTCCACTTTAAATATCAAAGTGAATCTTCGTTGTCATGTGCCATCAATTAAGATTGCATGTATAGACATTACATCACCCAGTAAAAGAGGAGAATTGAGTTATTGAACCATACAATCTTACTGAGGTTCGATTATTCAAAAAGTAGTCAGTAGATTGTCTGATCAAAGACTGTAGAGCCAGTTAATCCTTAAAACCTAACATTTTTTGAGACTGACTTAGAGCTAATACTTATGAAGGGCTTATATTGCAGAGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAGGTGAGTTATCATTCTTTACACCTCTTACTACTACACACACAAAAAGAAAACATAGAATCGCGACTTCTGTTTGCATTTTGTATGATAAGGAGAAGTTAGAACTCATTCTTGGAGAGACAAATACTGAGAGTGTCATCTTCTTCTCGACAGGGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATG</genome_strand>
        <mrna_strand>GATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT...........................................................................................................................................................................................................................................................................................................GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG......................................................................................................................................................GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E296486" ref_strand="+" ref_description="SGN-E296486 [cLET-19-F16]">
      <seq>gatgatagcaaaatccatagctaatactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagctgcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaacacggtgatagcaattacagttggggtgctcagtgttgctattggagttggaattccagttttttatgagacccaaattgata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3977" stop="2957"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3677" g_stop="3462" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="217" r_length="217" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126">
            <donor d_prob="0.987" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="3335" g_stop="3257" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="218" r_stop="296" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E296486" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>295</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296486" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3677" e_stop="3462"/>
          <exon e_start="3335" e_stop="3257"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGATAGCAAAATCCATAGCTAA-ACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATA</genome_strand>
        <mrna_strand>GATGATAGCAAAATCCATAGCTAATACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTGCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG..............................................................................................................................GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292489" ref_strand="+" ref_description="SGN-E292489 [cLET-16-B2]">
      <seq>gatagcaaaatccatagctaaactaaacattgaaagaaaagggaggaaatgttaacagcaccttcactttcccgctttaagtctccatttatcagctcacctcttaagcttcctactctttcttcttcttttttcactcagaaatttcatcaaacatgtcgtaggcgaaattcgtacccatgtattaaagctgtggatcttgatcaaaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="3974" stop="3164"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="3674" g_stop="3464" g_length="211"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="211" r_length="211" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E292489" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>211</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292489" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="3674" e_stop="3464"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACA</genome_strand>
        <mrna_strand>GATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293623" ref_strand="+" ref_description="SGN-E293623 [cLET-15-J8]">
      <seq>aaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccagacaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagtcacaagatgtggtttcatcaattaatgtatattccctttcatgtttttacacgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaactatatgtattcacatttggaatgtgttacaaattctagctcatatattgtatcatacattttacagttctaacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="4992" stop="4018"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="4692" g_stop="4311" g_length="382"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="382" r_length="382" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E293623" ref_strand="+">
        <total_alignment_score>0.976</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293623" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4692" e_stop="4311"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAAATTCTAGCTCATATATTGTATCATACATTTTACAGTTCTAACATATAATTTGGTT</genome_strand>
        <mrna_strand>AAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAAATTCTAGCTCATATATTGTATCATACATTTTACAGTTCTAACAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E546290" ref_strand="+" ref_description="SGN-E546290 [TUS-69-J7](-)">
      <seq>cctgacccagattaccgaattcctgttgtccttctagggttatctggtggtttattttatgtggaaaatctaccagcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcaaggagtcaggtgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagttatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccagagaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacaaggttaaggaactcgtcagttgagttacaagatgtggtttaatcaattaatgtatattccctttcatgtttttacacgtctgtaaaatcacaaagataaactaatgttcaatctgagtttgtgtcacaactcacaaaataatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaactgtatgtattcacatttgggatgtgttacaagttctagctcatatattatatcatacattttacagttctaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="6944" stop="4018"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6644" g_stop="6608" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="0.946"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" 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="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="120" r_length="83" r_score="0.988"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.98"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="121" r_stop="159" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="230" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="0.98"/>
            <acceptor a_prob="0.812" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="231" r_stop="345" r_length="115" r_score="0.991"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="4739" g_stop="4315" g_length="425"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="774" r_length="429" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E546290" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>770</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E546290" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6644" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4315"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACT-A---TCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAAATTCTAGCTCATATATTGTATCATACATTTTACAGTTCTAACATATAATTT</genome_strand>
        <mrna_strand>CCTGACCCAGATTACCGAATTCCTGTTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCAGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCAAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGTTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGAGAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACAAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTAATGTTCAATCTGAGTTTGTGTCACAACTCACAAAATAATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTGTATGTATTCACATTTGGGATGTGTTACAAGTTCTAGCTCATATATTATATCATACATTTTACAGTTCTAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E711292" ref_strand="+" ref_description="SGN-E711292 [FB01CD06]">
      <seq>tgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccaggcaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagttacaagatgtggtttaatcattaatgtatattacctttcatgtttttacgtgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaactatatgtattcacatttggaatgtgttacaagttaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="5333" stop="4063"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5033" g_stop="4998" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="0.00"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="151" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="4739" g_stop="4366" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="524" r_length="373" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="528" polyA_stop="543"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E711292" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E711292" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5033" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4366"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAA</genome_strand>
        <mrna_strand>TGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGGCAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATC-ATTAATGTATATTACCTTTCATGTTTTTACGTGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E711311" ref_strand="+" ref_description="SGN-E711311 [FB01CF06]">
      <seq>tgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccaggcaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagttacaagatgtggtttaatcattaatgtatattacctttcatgtttttacgtgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaactatatgtattcacatttggaatgtgttacaagttaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="5333" stop="4063"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5033" g_stop="4998" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="0.00"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="151" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="4739" g_stop="4366" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="524" r_length="373" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="528" polyA_stop="543"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E711311" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>525</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E711311" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5033" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4366"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAA</genome_strand>
        <mrna_strand>TGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGGCAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATC-ATTAATGTATATTACCTTTCATGTTTTTACGTGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733019" ref_strand="+" ref_description="SGN-E733019 [LB03DA08]">
      <seq>cttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccaggcaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagttacaagatgtggtttaatcaattaatgtatattacctttcatgtttttacgtgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaactatatgtattcacatttggaatgtgttaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="5225" stop="4065"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="4925" g_stop="4816" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="110" r_length="110" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4739" g_stop="4366" g_length="374"/>
          <reference_exon_boundary r_type="cDNA" r_start="111" r_stop="484" r_length="374" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="485" polyA_stop="508"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E733019" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733019" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4925" e_stop="4816"/>
          <exon e_start="4739" e_stop="4366"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAA</genome_strand>
        <mrna_strand>CTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGGCAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATCAATTAATGTATATTACCTTTCATGTTTTTACGTGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728216" ref_strand="+" ref_description="SGN-E728216 [LA17AC12]">
      <seq>acactgcaatggagagcgctcttctatctgcttcccgcttcactactgctctgcacaaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatagtcatactcttttcactaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgacccagattaccgaattcctgttgtccttctagggttatctggtggtttattttatgtggaaaatctaccagcagcagttcctattggtcttcttggattactcctgttattacagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcgaggagtcaggtgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccaggcaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagttacaagatgtggtttaatcaattaatgtatattacctttcatgtttttacgtgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggntactggatgcaaactatatgtattcacatttggaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7672" stop="4075"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7372" g_stop="7316" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="0.965"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91">
            <donor d_prob="0.969" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7224" g_stop="7091" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="191" r_length="134" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="192" r_stop="264" r_length="73" r_score="0.973"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="265" r_stop="347" r_length="83" r_score="0.976"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.96"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="348" r_stop="386" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="387" r_stop="457" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="1.00"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="458" r_stop="572" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="4739" g_stop="4375" g_length="365"/>
          <reference_exon_boundary r_type="cDNA" r_start="573" r_stop="937" r_length="365" r_score="0.975"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E728216" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>937</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728216" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7372" e_stop="7316"/>
          <exon e_start="7224" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4375"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAAT</genome_strand>
        <mrna_strand>ACACTGCAATGGAGAGCGCTCTTCTATCTGCTTCCCGCTTCACTACTGCTCTGCACA...........................................................................................AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGACCCAGATTACCGAATTCCTGTTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCAGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTACAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGGCAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATCAATTAATGTATATTACCTTTCATGTTTTTACGTGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGNTACTGGATGCAAACTATATGTATTCACATTTGGAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268625" ref_strand="+" ref_description="SGN-E268625 [cLEI-13-L16]">
      <seq>cccgggctgcaggcaaaaactagcggaccaaagtattttaacatgatctccagggagaagacgaatgggagccatacaaaccatacagggcagaatttgtggcaaaggtatgaagctcaacgaggttaatgaactcgtcagttgagtcacaagatgtggtttcatcaattaatgtatattccctttcatgtttttacacgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtatcaccattactgtatgaaaggcggtaactggatgcaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="4993" stop="4098"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="4693" g_stop="4396" g_length="298"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="312" r_length="299" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E268625" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>298</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268625" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="4693" e_stop="4396"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACA-ATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACT</genome_strand>
        <mrna_strand>CAAAAACTAGCGGACCAAAGTATTTTAACATGATCTCCAGGGAGAAGACGAATGGGAGCCATACAAACCATACAGGGCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAATGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E730550" ref_strand="+" ref_description="SGN-E730550 [LA24BH05]">
      <seq>ataatctgcaatggagagcgctcttctatctgcttcccgcttcactactgctctgcacaaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatagtcatactcttttcactaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgacccagattaccgaattcctgttgtccttctagggttatctggtggtttattttatgtggaaaatctaccagcagcagttcctattggtcttcttggattactcctgttattacagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcgaggagtcaggtgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaagcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccaggcaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagttacaagatgtggtttaatcaattaatgtatattacctttcatgtttttacgtgtctgtaaaatcacaaagataaactatcaatctgagtatgtgtcacaactcacaaaatcatgtattatatgtat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7674" stop="4135"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7374" g_stop="7316" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="0.949"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91">
            <donor d_prob="0.969" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7224" g_stop="7091" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="193" r_length="134" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="266" r_length="73" r_score="0.973"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="349" r_length="83" r_score="0.976"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.96"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="350" r_stop="388" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="459" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="1.00"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="574" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="4739" g_stop="4435" g_length="305"/>
          <reference_exon_boundary r_type="cDNA" r_start="575" r_stop="879" r_length="305" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E730550" ref_strand="+">
        <total_alignment_score>0.983</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730550" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7374" e_stop="7316"/>
          <exon e_start="7224" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4435"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTAT</genome_strand>
        <mrna_strand>ATAATCTGCAATGGAGAGCGCTCTTCTATCTGCTTCCCGCTTCACTACTGCTCTGCACA...........................................................................................AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGACCCAGATTACCGAATTCCTGTTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCAGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTACAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAAGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGGCAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTTACAAGATGTGGTTTAATCAATTAATGTATATTACCTTTCATGTTTTTACGTGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733988" ref_strand="+" ref_description="SGN-E733988 [LB11BH12]">
      <seq>agaaactgcaatggagagcgctcttctctctgcttcccgcttcactactgctctgcacaaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatagtcatactcttttcactaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgatccagattaccgaattcctattgtccttctagggttatctggtggtttattttatgtggaaaatctacccgcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcgaggagtcaggtgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaggcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccagacaaaccatacaatcagaatttgtggcaaaggtatgaagctcaacgaggttaaggaactcgtcagttgagtcacaagatgtggtttcatcaattaatgtatattccctttcatgtttttacacgtctgtaaaatcacaaagataaactatcaatctgagtatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7674" stop="4169"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7374" g_stop="7316" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7224" g_stop="7091" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="193" r_length="134" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="194" r_stop="266" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="349" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="1.00"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="350" r_stop="388" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="459" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="1.00"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="574" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="4739" g_stop="4469" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="575" r_stop="845" r_length="271" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E733988" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>845</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733988" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7374" e_stop="7316"/>
          <exon e_start="7224" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4469"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATG</genome_strand>
        <mrna_strand>AGAAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACA...........................................................................................AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E325856" ref_strand="+" ref_description="SGN-E325856 [cTOC-12-H12]">
      <seq>actgttgttcctgatccagattaccgaagtgctattgtccttctagggttatctggtggtttattttatgtggaaaatctacccgcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcgaggagtcaggtgaaaatgttttcgcgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagctatggtggccaaactttccgattttggtttattttaaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttaacgggaggcaactgtacgatgctatggtggagagatgtggcccttcaaaaactagcggaccaaagtagtgcaacatgagctccagggagaagacgaatatgagccagacaaaccatacaatcagaatttgtggcaaaggattgaaactcaacgaggttaaagaactcgtcagttgagtcacaagatgtggtttcatcaattaatgtatattccctttcatgtttttaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="6953" stop="4210"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6653" g_stop="6608" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="0.957"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="129" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="1.00"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="130" r_stop="168" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="239" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="0.98"/>
            <acceptor a_prob="0.812" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="354" r_length="115" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="4739" g_stop="4510" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="355" r_stop="584" r_length="230" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E325856" ref_strand="+">
        <total_alignment_score>0.990</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E325856" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6653" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4510"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACA</genome_strand>
        <mrna_strand>ACTGTTGTTCCTGATCCAGATTACCGAAGTGCTATTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGCGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................AACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGATTGAAACTCAACGAGGTTAAAGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E546249" ref_strand="+" ref_description="SGN-E546249 [TUS-69-I7]">
      <seq>gcgctcttctctctgcttcccgcttcactactgctctgcacagttgagcaaaatttctgtaaaactagactttgttaagcttatcttaaaattttcttgtattgtaaactaatttttgttttgtatttatcagaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatggtcatggtcttttcactagaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgacccagattaccgaattcctgttgtccttctagggttatctggtggtttattttatgtggaaaatctaccagcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcaaggagtcaggtgaaaatgttttcgtgggtggaaagaaccgctggaaatattcttcatttgtgaactgggagttatggtggccaaactttccgattttggtttatttttaagagaaacagacaaaacccgagggacaaatacactttttcccagtgatttttacggggagcaactgtacgatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7657" stop="4516"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7357" g_stop="7091" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="267" r_length="267" r_score="0.978"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="0.96"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="340" r_length="73" r_score="0.973"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="423" r_length="83" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.98"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="462" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="5068" g_stop="4998" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="463" r_stop="533" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67">
            <donor d_prob="0.908" d_score="0.98"/>
            <acceptor a_prob="0.812" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="4930" g_stop="4816" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="534" r_stop="648" r_length="115" r_score="0.983"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76">
            <donor d_prob="0.865" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="4739" g_stop="4717" g_length="23"/>
          <reference_exon_boundary r_type="cDNA" r_start="649" r_stop="670" r_length="22" r_score="0.870"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E546249" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>671</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E546249" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7357" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="4998"/>
          <exon e_start="4930" e_stop="4816"/>
          <exon e_start="4739" e_stop="4717"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAAGTAAGTAGAAGGCAATCCTTGCTCTAAGTCAGTTTTGCCAAATGGCTGATTCAAATGATGTGAACAGATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTTGTAAGTGTTTTTAAACTTAGAATGAGTATCTTTTGCTTTACATGTGAGGTTTAGTCTGATTAAATTTCATAAATAGAACGGGAGGCAACTGTACGATGC</genome_strand>
        <mrna_strand>GCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAACTAGACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATGGTCATGGTCTTTTCACTAGAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGACCCAGATTACCGAATTCCTGTTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCAGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCAAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA...................................................................ATATTCTTCATTTGTGAACTGGGAGTTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTTAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT............................................................................-ACGGGGAGCAACTGTACGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E265774" ref_strand="+" ref_description="SGN-E265774 [cLEI-11-D24]">
      <seq>ctcactcttttcaatttcagagaagctgcaatggagagcgctcttctctctgcttcccgcttcactactgctctgcacaaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatagtcatactcttttcactaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgatccagattaccgaattcctattgtccttctagggttatctggtggtttattttatgtggaaaatctacccgcagcagatcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatgaggctctggaggtgaaagttggggagcaactcaaggagtcaggtgaaaatgttttcgtgggtggaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7694" stop="4709"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7394" g_stop="7316" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="79" r_length="79" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7224" g_stop="7091" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="80" r_stop="213" r_length="134" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="286" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="369" r_length="83" r_score="0.988"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.98"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="5223" g_stop="5185" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="370" r_stop="408" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116">
            <donor d_prob="0.986" d_score="0.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="5068" g_stop="5009" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="409" r_stop="468" r_length="60" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E265774" ref_strand="+">
        <total_alignment_score>0.993</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E265774" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7394" e_stop="7316"/>
          <exon e_start="7224" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5185"/>
          <exon e_start="5068" e_stop="5009"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCACTCTTTTCAATTTCAGAGAAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTGGTACGTATAGCATGTGGTTACATTCTTATTTGTATAAATCTGATGTAAGCAATTTATATACCATTGCATTGTCATATTAGTTGTTCTCTCTAATTGCTATGTTAACTTCGTTGCAGGAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAG</genome_strand>
        <mrna_strand>CTCACTCTTTTCAATTTCAGAGAAGCTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACA...........................................................................................AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGATCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG....................................................................................................................GAGGTGAAAGTTGGGGAGCAACTCAAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295631" ref_strand="+" ref_description="SGN-E295631 [cLET-25-O3]">
      <seq>ggaaattacagagctcattctatggcaaagagattaatagtcatactcttttcactaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgatccagattaccgaattcctattgtccttctagggttatctggtggtttattttatgtggaaaatctacccgcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagatttgtctttgatgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7485" stop="4893"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7185" g_stop="7091" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="168" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="251" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="1.00"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5223" g_stop="5193" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="252" r_stop="282" r_length="31" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E295631" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>282</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295631" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7185" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5193"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTTGTCTTTGATGATG</genome_strand>
        <mrna_strand>GGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTTGTCTTTGATGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E358628" ref_strand="+" ref_description="SGN-E358628 [cLHT-22-I19]">
      <seq>cgctcttctctctgcttcccgcttcactactgctctgcacagttgagcaaaatttctgtaaaactagactttgttaagcttatcttaaaattttcttgtattgtaaactaatttttgttttgtatttatcagaagcagaaagagaagtagtaggtggacctgtggctgtgaggaaattacagagctcattctatggcaaagagattaatggtcatggtcttttcactagaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactgttgttcctgacccagattaccgaattcctgttgtccttctaaggttatctggtggtttattttatgtggaaaatctaccagcagcagttcctattggtcttcttggattactcctgttattccagacaacaagagtgagattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7656" stop="4906"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7356" g_stop="7091" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="0.96"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6680" g_stop="6608" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="339" r_length="73" r_score="0.959"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567">
            <donor d_prob="0.999" d_score="0.94"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6040" g_stop="5958" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="340" r_stop="422" r_length="83" r_score="0.988"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734">
            <donor d_prob="0.986" d_score="0.98"/>
            <acceptor a_prob="0.939" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="5223" g_stop="5206" g_length="18"/>
          <reference_exon_boundary r_type="cDNA" r_start="423" r_stop="440" r_length="18" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E358628" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>440</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E358628" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7356" e_stop="7091"/>
          <exon e_start="6680" e_stop="6608"/>
          <exon e_start="6040" e_stop="5958"/>
          <exon e_start="5223" e_stop="5206"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAGGTGCATCTTTCAATTCTCTTTATCTTTGATTAATCAACATTTTCAAATTTATAGTTGAAGTTAAACACATTGTTTGGATTGTTGTTACCTGTGGTATTGTATCGTAATGTTACTTAAGCTACGCTAAATTTTGTTGTATCGAATTATTAACTCCGTAATGTAAACTCCATATAATGCAACAACTTATTTGGTGTGATCACGTGGGCTTATCATCTTTCTTTCTTTTTTCTTTCTCATTTTGCCCTTATTTTGTATTCAATAATCATATTACTTTAAACCAAATCATAACTCTATCTCATACTCTATTTCTTTTGATAATATTATAAGTTTTATTGTTCAAATTGTTGGTACATGGTGGTCTTATGAAACAATAGGAAACAATACAATATATACATTATATTCATCAAAACAATTCAACAGAGTACATTACAATATACTACATTCTGAAACGATATGTACAACCATCCAAACAAGCTGTTGTTTGTTGAAGAATTTCCCTCGGTCCCTTCCCCATTTCATTTTTCTCTAGTGTCTTTGTTCTAATTTTTTACATTTTTGTATGAACAGGGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAGGTACCTTTTTTTTTTTAACAAATGAGATGGAGAGCACTGTAGTCATCTTATTAGAATGAGATTTTGTGTTAGTTCTGTTTTAAGCGGTTTCATCCTTCATGGCAACATTAAAAAATTATCCAGTCATCTACAAGGCACCCGTGCTTTGTGAATCATAGACATTAATGCTTTCCTTTACTTGATGCATGTTTACATGTCTAAGGTTTGTGGCTTTTAGCAAACAAAAATTGTGAGGTAGGAATTCAATGATATATACTGAACTTTTCCAACCTTAGTGTGTTGCATGAATTATACCTATAAAAGATAAGTAGGAGAGAGTTTTGCTTACATTGCCTAAAGAAACTTAAGAAAGTAATTCACAAGCCAACTTAGAGATTCTAGGTTCGAATCCCAACTACACTTTTTGTGAGATCACAACTCTAAATTGGTGGATTTCTTTTGGCAACCTGTGCTTCTGAGTTGAAGAGGCTGCTCGATGGAGAAGTTGAGATGTACATAAGCTGATGGGATGACCAATAACCCAAAAAAGAAGGAAAATAACCTCAGAATCATCTGTCAAGAGTTGAACCCCATGACATCCAAGTTATAACGGGGAGCTTCTTCTATTGCACCGGATCTAGTAACAGATCATCTGTTCATTCTGCTTATTATCTTAATTTCCTTGATCTCGTTCATTCATTTAGCATCTATCAGGCCGGCATTCCTTATTGATTCACATCGTTTTTCGCTTGCAGACAACAAGAGTGAGATTT</genome_strand>
        <mrna_strand>CGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAACTAGACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATGGTCATGGTCTTTTCACTAGAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGACCCAGATTACCGAATTCCTGTTGTCCTTCTAA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCAGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACAACAAGAGTGAGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316601" ref_strand="+" ref_description="SGN-E316601 [cTOA-25-J20]">
      <seq>ctcttctctctgcttcccgcttcactactgctctgcacaaagcagaaagagaagtagtaggtggacctgtggctgtgaggaattacagagctcattctatggcaaagagattaatagtcatactcttnttcactnaaaaacttcaaaaaaatcaatctcactatcacctcagtgatgcggaagaaactgataaagaaggagactggttgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="7654" stop="6345"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="7354" g_stop="7316" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="39" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91">
            <donor d_prob="0.969" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="7224" g_stop="7091" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="174" r_length="135" r_score="0.963"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410">
            <donor d_prob="0.996" d_score="0.92"/>
            <acceptor a_prob="0.991" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="6680" g_stop="6645" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="211" r_length="37" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E316601" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>209</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316601" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="7354" e_stop="7316"/>
          <exon e_start="7224" e_stop="7091"/>
          <exon e_start="6680" e_stop="6645"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTT-TTCACT-AAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTGGTCAGTTAATTCATATTTCTCTATTTTCTGTTTTTTCATTTGATCTAATTTTGCCTTTGGAATTTGAGATGATCTTATTGCTAATATAGAGAAGCCTCTGTAGTGAGGCAGAACCAATATTAGAAGTTTGGGGTTCTAAATTTGTCATGGAGCTGTCAATCAGTTTTGTTATTAGAGGTATACTTAATTTTCTAGTACAAATATAGGGTTTGTGAAGAAGCAACCCACCTAGCTCTGCCCCTGATTGTGAGATGCAGTTTATAAAGAGCATATAATATAACATAGTATGAAAGTTGATTCAAAGAAAACTAGGCTGTTATAGGGAAATGTTGGACGATTGTTATAGAGATGTTTGACTGTATCTAATTGTAGTTTCCTGGGAATTTGGGCTAATGTTCGTGGTTTGGCAGATGCGGAAGAAACTGATAAAGAAGGAGACT-GTTGTT</genome_strand>
        <mrna_strand>CTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACA...........................................................................................AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGG-AATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTNTTCACTNAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG..........................................................................................................................................................................................................................................................................................................................................................................................................................ATGCGGAAGAAACTGATAAAGAAGGAGACTGGTTGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E350494" ref_strand="+" ref_description="SGN-E350494 [cTOS-5-I3]">
      <seq>aaagacaaggacctcaaacaacccttgatttatgtcatcaagtacttaaccccccatggtaatttgaatatgtagtttatatacatcggaaaaaggattggttcttcaatgtacatctggcatatcttagttcattcattactgttgtccatgattttttagcatggctcgaaaagtataagggtcgtcgagtgtgtaggattgccagatgcaattaccattcattattaaatatccaaattatagtacttacgtttgtgtgaaggtgggaaaatgatcatgaatctatgaagttaagagttatcttagaggatcactgtacatacatataaacatctggttcttgagatggcttggttgatgtactgaatggtaattggaatgggactgggcttctataattgtatctcttctaataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="13414" stop="14433"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13714" g_stop="14141" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E350494" ref_strand="+">
        <total_alignment_score>0.986</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E350494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13714" e_stop="14141"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGACAAGGACCTCAAACAACCCTTGATTTATGTCATCAAGTACTTAACCCCCCATGGTAATTTGAATATGTAGTTTATATACATCGGAAAAAGGATTGGTTCTTCAATGTACATCTGGCATATCTTAGTTCATTCATTACTGTTGTCCATGATTTTTTAGCATGGCTCGAAAAGTATAAGGGTCGTCGAGTGTGTAGGATTGCCAGATGCAATTACCATTCATTATTAAATATCCAAATTATAGTACTTACGTTTGTGTGAAGGTGGGAAAATGATCATGAATCTATGAAGTTAAGAGTTATCTTAGAGGATCACTGTACATACATATAAACATCTGGTTCTTGAGATGGCTTGGTTGATGTACTGAATGGTAATTGGAATGGGACTGGGCTTCTATAATTGTATCTCTTCTAATAAACTTTTGAA</genome_strand>
        <mrna_strand>AAAGACAAGGACCTCAAACAACCCTTGATTTATGTCATCAAGTACTTAACCCCCCATGGTAATTTGAATATGTAGTTTATATACATCGGAAAAAGGATTGGTTCTTCAATGTACATCTGGCATATCTTAGTTCATTCATTACTGTTGTCCATGATTTTTTAGCATGGCTCGAAAAGTATAAGGGTCGTCGAGTGTGTAGGATTGCCAGATGCAATTACCATTCATTATTAAATATCCAAATTATAGTACTTACGTTTGTGTGAAGGTGGGAAAATGATCATGAATCTATGAAGTTAAGAGTTATCTTAGAGGATCACTGTACATACATATAAACATCTGGTTCTTGAGATGGCTTGGTTGATGTACTGAATGGTAATTGGAATGGGACTGGGCTTCTATAATTGTATCTCTTCTAATAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E354342" ref_strand="+" ref_description="SGN-E354342 [cTOS-17-E1]">
      <seq>aaagacaaggacctcaaacaacccttgatttatgtcatcaagtacttaaccccccatggtaatttgaatatgtagtttatatacatcggaaaaaggattggttcttcaatgtacatctggcatatcttagttcattcattactgttgtccatgattttttagcatggctcgaaaagtataagggtcgtcgagtgtgtaggattgccagatgcaattaccattcattattaaatatccaaattatagtacttacgtttgtgtgaaggtgggaaaatgatcatgaatctatgaagttaagagttatcttagaggatcactgtacatacatataaacatctggttcttgagatggcttggttgatgtactgaatggtaattggaatgggactgggcttctataattgtatctcttctaataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="13414" stop="14433"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13714" g_stop="14141" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E354342" ref_strand="+">
        <total_alignment_score>0.986</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E354342" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13714" e_stop="14141"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGACAAGGACCTCAAACAACCCTTGATTTATGTCATCAAGTACTTAACCCCCCATGGTAATTTGAATATGTAGTTTATATACATCGGAAAAAGGATTGGTTCTTCAATGTACATCTGGCATATCTTAGTTCATTCATTACTGTTGTCCATGATTTTTTAGCATGGCTCGAAAAGTATAAGGGTCGTCGAGTGTGTAGGATTGCCAGATGCAATTACCATTCATTATTAAATATCCAAATTATAGTACTTACGTTTGTGTGAAGGTGGGAAAATGATCATGAATCTATGAAGTTAAGAGTTATCTTAGAGGATCACTGTACATACATATAAACATCTGGTTCTTGAGATGGCTTGGTTGATGTACTGAATGGTAATTGGAATGGGACTGGGCTTCTATAATTGTATCTCTTCTAATAAACTTTTGAA</genome_strand>
        <mrna_strand>AAAGACAAGGACCTCAAACAACCCTTGATTTATGTCATCAAGTACTTAACCCCCCATGGTAATTTGAATATGTAGTTTATATACATCGGAAAAAGGATTGGTTCTTCAATGTACATCTGGCATATCTTAGTTCATTCATTACTGTTGTCCATGATTTTTTAGCATGGCTCGAAAAGTATAAGGGTCGTCGAGTGTGTAGGATTGCCAGATGCAATTACCATTCATTATTAAATATCCAAATTATAGTACTTACGTTTGTGTGAAGGTGGGAAAATGATCATGAATCTATGAAGTTAAGAGTTATCTTAGAGGATCACTGTACATACATATAAACATCTGGTTCTTGAGATGGCTTGGTTGATGTACTGAATGGTAATTGGAATGGGACTGGGCTTCTATAATTGTATCTCTTCTAATAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318126" ref_strand="+" ref_description="SGN-E318126 [cTOA-29-F10]">
      <seq>tataagcttattcttagaagcacaacagggccgatagatttgtttctcttgagcaaacagggtaggcagcatgaggacataaccatcaaacatgacaagtccatggattcagtgtctgctgcaaaaaagatggatgatgcttacccatccccagcacatccttgctctttagattcaacagactcaaagctctcgggtgtccataaaatagtaccttctcataacagtatagatgatgattactggttgcgctcggaggaggcggttagcgcaactgctctgtggggcattgaataatctttaaaattgagcctggttacaaactccatatatggataccagaagatatacagaaataaggcttcttataaacatgtaaatatcttttgaagctaaaaagctttacatatctctagccagattatagtaagaaacaactggtttcagggaaactcctacaacttttgcgtacaactatatggttcacaggaatatcagtcttatgattaaccaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="16152" stop="14556"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15852" g_stop="15800" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="15799" i_stop="15606" i_length="194">
            <donor d_prob="0.982" d_score="1.00"/>
            <acceptor a_prob="0.650" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="15605" g_stop="15431" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="228" r_length="175" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="15430" i_stop="15142" i_length="289">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="15141" g_stop="14848" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="229" r_stop="522" r_length="294" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E318126" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318126" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15852" e_stop="15800"/>
          <exon e_start="15605" e_stop="15431"/>
          <exon e_start="15141" e_stop="14848"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATAAGCTTATTCTTAGAAGCACAACAGGGCCGATAGATTTGTTTCTCTTGAGGTATCTCCACTACATGACTAGCTTCTCTCCTTTTGTAACATATGGGTGTATGTATAGCTTGGCTGGTTCACTAATTCTCTTTGTGTAGTAGTAGTCTCCCCTAAAAAGAAAGTGATATTTTACTGTACAAGCAAAAAAAATAAAGAAAGAAACTTCAAGGCCCAATTAACTAACATAATTATCAACAAATGCAGCAAACAGGGTAGGCAGCATGAGGACATAACCATCAAACATGACAAGTCCATGGATTCAGTGTCTGCTGCAAAAAAGATGGATGATGCTTACCCATCCCCAGCACATCCTTGCTCTTTAGATTCAACAGACTCAAAGCTCTCGGGTGTCCATAAAATAGTACCTTCTCATAACAGTGTAAGTATATGACTGAACCCCTCTCTTTCCCTTTCGAATTTATTGGTATCTCTTCCTCTATTGCATAAGTTAAAATGCATGTGAATCAGTATGGTTAAACACCATCAGCCTTGTTGTTTTGAAGTGACTAAGTAATTCGAAGCAATGGGCTATCCCTTTTTTAATATTAACCGGCAAAGTAATCCAATTAATAAGCCGTCAATTCTTGTAACAATAGTTATTCTATAGTAGTGAATTCATATGAAAACACTGATTATAATCCACAACATGTTCTTCCCCTAAACTGCAGATAGATGATGATTACTGGTTGCGCTCGGAGGAGGCGGTTAGCGCAACTGCTCTGTGGGGCATTGAATAATCTTTAAAATTGAGCCTGGTTACAAACTCCATATATGGATACCAGAAGATATACAGAAATAAGGCTTCTTATAAACATGTAAATATCTTTTGAAGCTAAAAAGCTTTACATATCTCTAGCCAGATTATAGTAAGAAACAACTGGTTTCAGGGAAACTCCTACAACTTTTGCGTACAACTATATGGTTCACAGGAATATCAGTCTTATGATTAACCAATGCTGGGA</genome_strand>
        <mrna_strand>TATAAGCTTATTCTTAGAAGCACAACAGGGCCGATAGATTTGTTTCTCTTGAG..................................................................................................................................................................................................CAAACAGGGTAGGCAGCATGAGGACATAACCATCAAACATGACAAGTCCATGGATTCAGTGTCTGCTGCAAAAAAGATGGATGATGCTTACCCATCCCCAGCACATCCTTGCTCTTTAGATTCAACAGACTCAAAGCTCTCGGGTGTCCATAAAATAGTACCTTCTCATAACAGT.................................................................................................................................................................................................................................................................................................ATAGATGATGATTACTGGTTGCGCTCGGAGGAGGCGGTTAGCGCAACTGCTCTGTGGGGCATTGAATAATCTTTAAAATTGAGCCTGGTTACAAACTCCATATATGGATACCAGAAGATATACAGAAATAAGGCTTCTTATAAACATGTAAATATCTTTTGAAGCTAAAAAGCTTTACATATCTCTAGCCAGATTATAGTAAGAAACAACTGGTTTCAGGGAAACTCCTACAACTTTTGCGTACAACTATATGGTTCACAGGAATATCAGTCTTATGATTAACCAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E745186" ref_strand="+" ref_description="SGN-E745186 [GI|47105942]">
      <seq>gatcgtttagggttctagggtttaaactaacagagaactgaagcttatagtgtaacttccttctctactgcttcatctaatgcttaaagattgaatttttagcagcaaaaatgtctattgaagaagcagttgatgaggattcgaagcaaaatcataatagtagattaacttatgaaggttgcaatgtattgcttgacatcaatgatggcgaccgtttagttttttctcgtcttactgctgcctcgacattgaaaattgggaataagaagtgttctcttcagcctcttataggttgtccattcgggtctctgtttcaagtggagccgggaaaagaaggaacctttttgactcgttttgttgagaatgcagaaggtaacggccttgaagaaaaagacgtggatggatctaaagacaaccgtgcgcttgttgataataatactgctcagagtctcactagtgaagatattgacgagatgcgaaagcagggagcaaaaggggatgaaatagttgaagcactcattgcaaacagtgcaacttttgagaagaagacattattttcacaagataagtatagggttaagaaacagaagaaatatgcacctcgagtacttttgaggcgcccctttgcacgaagcatttgtgaggcctacttcaagaaacatcctgaaaaaaatcggattcatgcgagtggatgcactatctctactgctctccttggggaatgttactgcaaatgcagatgtacttgtagtggacatgctcagtggtattcttactggtgctattgcagaacgacttggaggtactggttatgtgtgcaatacttatcgtggatcatcaccatatcctgtcgatatcacaaggatgtttaatttaagcgatgaaatctgtaaaagaatcgtgcatgcatcactgaccgacctgaattcatttcaaactggagcttcagtgtctgagggtcaggaagaaaccttacctgtcactcattctggtggtctagacgaagttagtgtgccagctgaagatggtggcatggatgtaacacctgagagagtttcttctccaataatcaagcctgttaaatctataaaagcaggtcagaaagcaaccctcgaggccatcaagtcgtggaaagaaaacggtttttccagcctaataattgctgctccggaactggacccatggggcattattaaagaagtgcttcctcttttatcattttcagctccttttgctgtttatcaccagtatgctcagcccctagctacgtgtatgcacaacctgcagattgagaaaatggcgattggattacaaatttctgaaccttggctacgtgaatatcaggtactcccatcaagaacccatccacatatgcagatgagcgcgtttggtggttatatactaagtggcacgaaaatatcgagcagtgactcccttaccagctctaactaggataaatttttttggcatctcactctgcttggttgtacatgtcgcttgacgataccattttcgtctttcgagaatattccctgttagaatagatgtagggattatcttgtctcttttctggggcagaaacaaggttactcatgttgtacttttattcattgattgatgtatgcttgcttttgtatgagcaattcttctaaatcaaaagactaaagggtctttttcctcttactttataaagtatttgaagattaagtggtaaattgtagaattatattgttgtctttcttggatcaagcaattgaagtctgttttgttgaagaaatataaaatatgtaatacaacattaacaattattcttcaactccaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="29107" stop="22478"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28808" g_stop="28565" g_length="244"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="244" r_length="244" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="28564" i_stop="28411" i_length="154">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28410" g_stop="28283" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="245" r_stop="372" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28282" i_stop="27274" i_length="1009">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27273" g_stop="27165" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="373" r_stop="481" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27164" i_stop="26727" i_length="438">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26726" g_stop="26645" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="563" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26644" i_stop="26575" i_length="70">
            <donor d_prob="0.615" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26574" g_stop="26504" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="564" r_stop="634" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="26503" i_stop="25827" i_length="677">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="0.95"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="25826" g_stop="25785" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="635" r_stop="677" r_length="43" r_score="0.952"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="25784" i_stop="25503" i_length="282">
            <donor d_prob="0.994" d_score="0.95"/>
            <acceptor a_prob="0.917" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="25502" g_stop="25378" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="678" r_stop="802" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="25377" i_stop="25075" i_length="303">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="25074" g_stop="24981" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="803" r_stop="896" r_length="94" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="24980" i_stop="24827" i_length="154">
            <donor d_prob="0.875" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="24826" g_stop="24760" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="897" r_stop="963" r_length="67" r_score="1.000"/>
        </exon>
        <intron i_serial="9">
          <gDNA_intron_boundary i_start="24759" i_stop="24648" i_length="112">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.729" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="10">
          <gDNA_exon_boundary g_start="24647" g_stop="24460" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="964" r_stop="1151" r_length="188" r_score="1.000"/>
        </exon>
        <intron i_serial="10">
          <gDNA_intron_boundary i_start="24459" i_stop="24378" i_length="82">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="11">
          <gDNA_exon_boundary g_start="24377" g_stop="24272" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1152" r_stop="1257" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="11">
          <gDNA_intron_boundary i_start="24271" i_stop="23725" i_length="547">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="12">
          <gDNA_exon_boundary g_start="23724" g_stop="23638" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="1258" r_stop="1344" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="12">
          <gDNA_intron_boundary i_start="23637" i_stop="23261" i_length="377">
            <donor d_prob="0.145" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="13">
          <gDNA_exon_boundary g_start="23260" g_stop="22781" g_length="480"/>
          <reference_exon_boundary r_type="cDNA" r_start="1345" r_stop="1824" r_length="480" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1825" polyA_stop="1837"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E745186" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1823</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E745186" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28808" e_stop="28565"/>
          <exon e_start="28410" e_stop="28283"/>
          <exon e_start="27273" e_stop="27165"/>
          <exon e_start="26726" e_stop="26645"/>
          <exon e_start="26574" e_stop="26504"/>
          <exon e_start="25826" e_stop="25785"/>
          <exon e_start="25502" e_stop="25378"/>
          <exon e_start="25074" e_stop="24981"/>
          <exon e_start="24826" e_stop="24760"/>
          <exon e_start="24647" e_stop="24460"/>
          <exon e_start="24377" e_stop="24272"/>
          <exon e_start="23724" e_stop="23638"/>
          <exon e_start="23260" e_stop="22781"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATCGTTTAGGGTTCTAGGGTTTAAACTAACAGAGAACTGAAGCTTATAGTGTAACTTCCTTCTCTACTGCTTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTCGTAAGTAATTACATCCGATTTTTTTTTGCTTCTGTCTGCTGCATTTAGTTTTGTAATTGAGATATAGTTGATTGATTTTAGTGCATAAAGATGCAGTTTTTTGTTCTGGATTATGGATTTTTGAACTGATGGAGAAGTTGTGTTGTGCATGCAGGACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAGGTATTCTTCTGATTTAGCCTTTTCATCTTCTATGAGTACTGTTTTCTCTGTTCTTCAATTAGTTATTATTACTAAGTTTATTCAACTTGGGGCGGTAGTCATTTACTGGGAGTACTTAGTTTTTGAAGTAGTCAATTACTAAAAAAGGCAGCCAGATACACTAAGCTCTTCCTATGTGCCGATCACGATGTATCATACACATCCTTACCCTCATTTCTGAAAGTGTTCTTTTTCACATCTCAGAGCCCTTGAGTTCACGTGACAGTCTGACAATTTTATGTGTAATGTAATTATATAGCATTACAGATAATAGGGCTAATCAGCCTATTATGTTTAATGGTATATACTTATAATATCTATCTGAAAGATTCTAATGCAAGGTTTTCTCAGAAAAATGCATTGCTTTGTATGGATAATCATCATAGACTCTTTTAGACTTGGAGGGAGCAAGCATGATTAACATAACTCTTTAACTTTATAACAAGGAAGATTACATGGGGTACTTAGACTTCAGTTGATGATATTTTTGCCTGTGCAAATGGCTTTTAGGGGTTGCATTTGTGGACCTTCCTGCCACATTGCAAATACCTTGTTTTTGGATAGAGCCAAAGAATGAGCTCTCGTTTTCCATGACGCATTCAAACATTTTTAGTAAAACCAGAACTAGTCTTCTTTTTAGCTTGGTTTATCCACTACAGTGTATTTCTTGCTTAAGAACCAGTTGAAGCGGGACAGAAGACTAGGATGTAGAGGTAGTATATAATTCTTTGACCAAGCTAGTATGCAAAGATAGACCAAACTAAATATGCTTATGCATCTCATGTTCAAAGGGTATCCCGGTGCACAAAGCATCCCGAGTGTCACACTGGGTTTGGGGAAGGGCCGCACCTGCAGAGTGTGATGTAGACAATCTACCCTTATACATCTCGTGTTACTTTCTCTTATTGTTCTAGTCTCTTTTTAACAAATTGTGGAATTTATAGTAACTTTTGTGCATTTTCATTATCAGGTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAAGTGAGTTTGTCTGAGGTTCATGGTTTTATGTGGTATTGTTTATTTATTTTAGTGGGCAGTTTCAAGAATTGTGGGAAAACCTTGCATAAGAGTCTTTCGAAGGCAGTTTCAAGATACTATTTTAGTGGATATTGATAATGTGTACTTTCAGTTAATTAGACGACCTCTAGGTTTGAGAACTGCAAACTAGTCTGGGATGGTGGTATGCATCATCTGCCGCTGTTTCACTCTGTTTTGGCAAATTTCATTGATATATTAACAGAAAAATTGGAGGCTTCTGAATCCAGAATTTCTATAGATCTATATTATATTTCTTCTGATATGTTTGAACAAATTTTGTTTACAAAAGAGTTCTCTCAAGCAAAAGAAAAGGCTGCAAGATTCTTAGGTTTTCATTTAGCAGTTTTGAAGAGAAGTATTAATCTGACTATGTTGCAGGCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAAGTGAGCTTGGCATTTTTGGTGTTGATTAGTTTTTCTTTGAGAAAATATGCTGACCTCTCATTGTTTGCAGGATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTGCACGAAGGTACACTCCTGTCTTTAAATCTCCTTTAGTTATTCTGGAGATAGACGTACTACTTCCTGATTTTTCCTTCATTTATAACTTAATCTTTGGAGAAGGGGAAGGTAGAACGAGATTGGATAATGTTTTCACTGCATTTCTTTGATATAGCTTAGTAAATAAAACTCTAAGATTGGTAATGTAATCAAAATTAAACAAGTTACTTTCATATGCTGCAAAATGTTGCACGTTCGCCCCAGGTGGAAGAAGGCAGTATTTCTTATTTGAGCAATGATCCAGTAACTGTCTATTTGTTGTAACTAGATTATACCACTTCATTCATGTGGAACACTCAGTTTTTCTGTGGATGAGTATGTCCTCGTATTGCTTTTTGATTAGTAAAGCATTTTAGGGCTTGTGGATTGTGTTTCACTTTTTATGATTTTCTTTTTTTAATTCAGGTGATAAGTAAAACATATAATGGTAGTTTTTCATTAATTTCTTCTAAGCACTATTGTTCTTCAAATCATATAATTGATTGTTCTGCATTTAATTTCTGAACTTGAAATCCCCAAGCTATTAGTGGTGATGTCAGATGTAGATAGTCGTAATACTACATTTGGTTTCTAGTTGCAAATCCCATAGTCGTTATCTTCCTCAATCTTTTCTTTAATTTCTAACATACCTCTTGCATTTTTCAGCATTTGTGAGGCCTACTTCAAGAAACATCCTG-AAAAAATCGGGTAATAATATGGTCTTTTCTTGTGTTTGATCAAATATCTTCATCTGTTGTTTCTGGTTATGATTTGTCTTTTTGATGGGAGGGAAAGAAGGATAGACATTGATAACTTATTTTAGCATCAGAAAATCTTGAAATCTGATATATCCTCCTTGATGTTATTTTTCTTTGTGGTTCAGATGCTCACTGTAGTCTAATAACCCAAAGTTTCATATCTTATTCATTTTGCTTTGCATGATTCTGGGTTTACATGGGGGTTGATTTTATATCCTCTTGATTCCATCAGATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCAAATGCAGATGTACTTGTAGTGGACATGCTCAGTGGTATTCTTACTGGTGCTATTGCAGAACGACTTGGAGGTATGTATTTGTTCTTAACTGTAGTTACATTAAGGAAATCAAGGGATATTTGTGAATTGTGACCATTGCTTTATACACATAAAATTTGATCATGCAGCCTATACTAATGGGAAATTGTATCATGTCTGTGGATTATTGCTACTGATACTGATCGTATGTTTGTCATCATGATGTGAACGGCGCTGATGCTTATAGTTGTGAAACCATGTCGAACATGTTATAGACTTATAGTATTGTTAAAGAGTGTTAATTGCTATTTAAGTTAATGACTTTTTAATATTTTCATGACAATGATATTAGCAGGTACTGGTTATGTGTGCAATACTTATCGTGGATCATCACCATATCCTGTCGATATCACAAGGATGTTTAATTTAAGCGATGAAATCTGTAAAAGGTACACTTCCTTTTGCAATGAAATAGAAAAATTACCCAATTAGTGCACAGAGAAAAAAATTGTATATTTCAGTGGATAGCTTTTGTCTAAACTCTAAATATGTTTTACTGCATTCGTACTAACTATAAACTTTGCTGTTTGTGTATGTATCTAGAATCGTGCATGCATCACTGACCGACCTGAATTCATTTCAAACTGGAGCTTCAGTGTCTGAGGGTCAGGTAAAACCATGTTGTAATGTCAAAAGTTGATCCTTTTTTGGTGTAAATTGTTTCTTCTGTAAATGCGTGCGTGGATGACTTTTAAACTTCTCTCTAAAACATGTTCCTGCAGGAAGAAACCTTACCTGTCACTCATTCTGGTGGTCTAGACGAAGTTAGTGTGCCAGCTGAAGATGGTGGCATGGATGTAACACCTGAGAGAGTTTCTTCTCCAATAATCAAGCCTGTTAAATCTATAAAAGCAGGTCAGAAAGCAACCCTCGAGGCCATCAAGTCGTGGAAAGAAAACGGTTTTTCCAGGTTTGAATTTAATCTGGGTTTTATTCTTTTCTTTGACACATAATGTTTCTCCTTCTATCTCATTTCCAATATAATATTTCAGCCTAATAATTGCTGCTCCGGAACTGGACCCATGGGGCATTATTAAAGAAGTGCTTCCTCTTTTATCATTTTCAGCTCCTTTTGCTGTTTATCACCAGTATGCTCAGGTATTGTTCTTAGCTTGCCAATCTTATTTAATGTTTCTTAGCCTGCCAGGCTGCTCATTCATTGTTCACACACACAGCCCTTTCTTATTCACTTATGCAATAGCCCAACTTCTGCATTCTTTATATGTCTAGAAAAATTTTCTAAGGATGAAGTTTAGATAAACATTTTTTAATAGTAAAACCTTATGTTATTGGATTTAGGCATCCTGTAGTGAGCATGTGGTAGCAAATCAATATCCTTTTTTCTGCTCTTTAATGTCCAAAGCTGAGTAAATAAGTCGAAGAACTAAAATAGATTTTCAGAAGGTCATTCTCATTTTCCATTTGAGAGATGCAAGCATTTGAGAGGAGATCCTGCAACAGGATCACGTCACTGCTTATATTTTGGCTAGATTTTTGTTAAAAGACTCTGCTTTCTCCCATAAACTGGTGTGGATGGGTAGGTGGGCGGGCTGTTGTGTCAATAATTGGAGCGCACTCTTTGTCACATCACCTTCCCTTTCTGTTGGAAAAATAAGACAAAACTAATCCTTTGTTTTCATTGCAGCCCCTAGCTACGTGTATGCACAACCTGCAGATTGAGAAAATGGCGATTGGATTACAAATTTCTGAACCTTGGCTACGTGAATATCAGGTTTGTTTTAACTAAACCGAAACGACCCCGAAAAGGGGATCTGACCACTTACATGATTACTTAACTTTATATTTATTTGCATTCTCCAGGGAGATTCTGTCAAGCAGATAATAGAAATTTAACTATAGCTCCACTTGAAGTAGTTTGACATGTGTACACTTTTTTTTTTTTTACTGACAACTTCTTTTTCTGTACTTGTGATCAGAATTTAGGATCTAAAGTCAATAGGTTTAAACTGAGTCTAATACACACACAAAAACTTGCATGTTTATTTGTGGATCGAACCAAAAACAATGTGTTCAGTTGAACCTGCCTCTAGATCTGCCTATGTTTGCTATAGCTTGTTAATTGTGCCTGAAATACTTGAAAACATGCAGGTACTCCCATCAAGAACCCATCCACATATGCAGATGAGCGCGTTTGGTGGTTATATACTAAGTGGCACGAAAATATCGAGCAGTGACTCCCTTACCAGCTCTAACTAGGATAAATTTTTTTGGCATCTCACTCTGCTTGGTTGTACATGTCGCTTGACGATACCATTTTCGTCTTTCGAGAATATTCCCTGTTAGAATAGATGTAGGGATTATCTTGTCTCTTTTCTGGGGCAGAAACAAGGTTACTCATGTTGTACTTTTATTCATTGATTGATGTATGCTTGCTTTTGTATGAGCAATTCTTCTAAATCAAAAGACTAAAGGGTCTTTTTCCTCTTACTTTATAAAGTATTTGAAGATTAAGTGGTAAATTGTAGAATTATATTGTTGTCTTTCTTGGATCAAGCAATTGAAGTCTGTTTTGTTGAAGAAATATAAAATATGTAATACAACATTAACAATTATTCTTCAACTCCAAAC</genome_strand>
        <mrna_strand>GATCGTTTAGGGTTCTAGGGTTTAAACTAACAGAGAACTGAAGCTTATAGTGTAACTTCCTTCTCTACTGCTTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTC..........................................................................................................................................................GACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAA......................................................................GATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTGCACGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAAATCGG..........................................................................................................................................................................................................................................................................................ATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCAAATGCAGATGTACTTGTAGTGGACATGCTCAGTGGTATTCTTACTGGTGCTATTGCAGAACGACTTGGAG...............................................................................................................................................................................................................................................................................................................GTACTGGTTATGTGTGCAATACTTATCGTGGATCATCACCATATCCTGTCGATATCACAAGGATGTTTAATTTAAGCGATGAAATCTGTAAAAG..........................................................................................................................................................AATCGTGCATGCATCACTGACCGACCTGAATTCATTTCAAACTGGAGCTTCAGTGTCTGAGGGTCAG................................................................................................................GAAGAAACCTTACCTGTCACTCATTCTGGTGGTCTAGACGAAGTTAGTGTGCCAGCTGAAGATGGTGGCATGGATGTAACACCTGAGAGAGTTTCTTCTCCAATAATCAAGCCTGTTAAATCTATAAAAGCAGGTCAGAAAGCAACCCTCGAGGCCATCAAGTCGTGGAAAGAAAACGGTTTTTCCAG..................................................................................CCTAATAATTGCTGCTCCGGAACTGGACCCATGGGGCATTATTAAAGAAGTGCTTCCTCTTTTATCATTTTCAGCTCCTTTTGCTGTTTATCACCAGTATGCTCAG...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCCCTAGCTACGTGTATGCACAACCTGCAGATTGAGAAAATGGCGATTGGATTACAAATTTCTGAACCTTGGCTACGTGAATATCAG.........................................................................................................................................................................................................................................................................................................................................................................................GTACTCCCATCAAGAACCCATCCACATATGCAGATGAGCGCGTTTGGTGGTTATATACTAAGTGGCACGAAAATATCGAGCAGTGACTCCCTTACCAGCTCTAACTAGGATAAATTTTTTTGGCATCTCACTCTGCTTGGTTGTACATGTCGCTTGACGATACCATTTTCGTCTTTCGAGAATATTCCCTGTTAGAATAGATGTAGGGATTATCTTGTCTCTTTTCTGGGGCAGAAACAAGGTTACTCATGTTGTACTTTTATTCATTGATTGATGTATGCTTGCTTTTGTATGAGCAATTCTTCTAAATCAAAAGACTAAAGGGTCTTTTTCCTCTTACTTTATAAAGTATTTGAAGATTAAGTGGTAAATTGTAGAATTATATTGTTGTCTTTCTTGGATCAAGCAATTGAAGTCTGTTTTGTTGAAGAAATATAAAATATGTAATACAACATTAACAATTATTCTTCAACTCCAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E209925" ref_strand="+" ref_description="SGN-E209925 [cLEC-52-F2]">
      <seq>ccctttgcacgaagcatttgtgaggcctacttcaagaaacatcctgaaaaaatcggattcatgcgagtggatgcactatctctactgctctccttggggaatgttactgctaatgcagatgtacttgtagtggacatgctcagtggtattcttactggtgctattgcagaacgacttggaggtactggttatgtgtgcaatacttatcgtggatcatcaccatatcctgtcgatatcacaaggatgtttaatttaagcgatgaaatctgtaaaagaatcgtgcatgcatcactgaccgacctgaattcatttcaaactggagcttcagtgtctgagggtcaggaagaaaccttacctgtcactcattctggtggtctagacgaagttagtgtgccagctgaagatggtggcatggatgtaacacctgagagagtttcttctccaataatcaagcctgttaaatctataaaagcaggtcagaaagcaaccctcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="26128" stop="24196"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25826" g_stop="25785" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="56" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25784" i_stop="25503" i_length="282">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.917" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25502" g_stop="25378" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="181" r_length="125" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="25377" i_stop="25075" i_length="303">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="25074" g_stop="24981" g_length="94"/>
          <reference_exon_boundary r_type="cDNA" r_start="182" r_stop="275" r_length="94" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="24980" i_stop="24827" i_length="154">
            <donor d_prob="0.875" 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="24826" g_stop="24760" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="342" r_length="67" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="24759" i_stop="24648" i_length="112">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.729" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="24647" g_stop="24496" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="343" r_stop="494" r_length="152" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E209925" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>480</cumulative_length_of_scored_exons>
        <coverage percentage="0.972" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E209925" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25826" e_stop="25785"/>
          <exon e_start="25502" e_stop="25378"/>
          <exon e_start="25074" e_stop="24981"/>
          <exon e_start="24826" e_stop="24760"/>
          <exon e_start="24647" e_stop="24496"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAATCGGGTAATAATATGGTCTTTTCTTGTGTTTGATCAAATATCTTCATCTGTTGTTTCTGGTTATGATTTGTCTTTTTGATGGGAGGGAAAGAAGGATAGACATTGATAACTTATTTTAGCATCAGAAAATCTTGAAATCTGATATATCCTCCTTGATGTTATTTTTCTTTGTGGTTCAGATGCTCACTGTAGTCTAATAACCCAAAGTTTCATATCTTATTCATTTTGCTTTGCATGATTCTGGGTTTACATGGGGGTTGATTTTATATCCTCTTGATTCCATCAGATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCAAATGCAGATGTACTTGTAGTGGACATGCTCAGTGGTATTCTTACTGGTGCTATTGCAGAACGACTTGGAGGTATGTATTTGTTCTTAACTGTAGTTACATTAAGGAAATCAAGGGATATTTGTGAATTGTGACCATTGCTTTATACACATAAAATTTGATCATGCAGCCTATACTAATGGGAAATTGTATCATGTCTGTGGATTATTGCTACTGATACTGATCGTATGTTTGTCATCATGATGTGAACGGCGCTGATGCTTATAGTTGTGAAACCATGTCGAACATGTTATAGACTTATAGTATTGTTAAAGAGTGTTAATTGCTATTTAAGTTAATGACTTTTTAATATTTTCATGACAATGATATTAGCAGGTACTGGTTATGTGTGCAATACTTATCGTGGATCATCACCATATCCTGTCGATATCACAAGGATGTTTAATTTAAGCGATGAAATCTGTAAAAGGTACACTTCCTTTTGCAATGAAATAGAAAAATTACCCAATTAGTGCACAGAGAAAAAAATTGTATATTTCAGTGGATAGCTTTTGTCTAAACTCTAAATATGTTTTACTGCATTCGTACTAACTATAAACTTTGCTGTTTGTGTATGTATCTAGAATCGTGCATGCATCACTGACCGACCTGAATTCATTTCAAACTGGAGCTTCAGTGTCTGAGGGTCAGGTAAAACCATGTTGTAATGTCAAAAGTTGATCCTTTTTTGGTGTAAATTGTTTCTTCTGTAAATGCGTGCGTGGATGACTTTTAAACTTCTCTCTAAAACATGTTCCTGCAGGAAGAAACCTTACCTGTCACTCATTCTGGTGGTCTAGACGAAGTTAGTGTGCCAGCTGAAGATGGTGGCATGGATGTAACACCTGAGAGAGTTTCTTCTCCAATAATCAAGCCTGTTAAATCTATAAAAGCAGGTCAGAAAGCAACCCTCGA</genome_strand>
        <mrna_strand>CATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAATCGG..........................................................................................................................................................................................................................................................................................ATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCTAATGCAGATGTACTTGTAGTGGACATGCTCAGTGGTATTCTTACTGGTGCTATTGCAGAACGACTTGGAG...............................................................................................................................................................................................................................................................................................................GTACTGGTTATGTGTGCAATACTTATCGTGGATCATCACCATATCCTGTCGATATCACAAGGATGTTTAATTTAAGCGATGAAATCTGTAAAAG..........................................................................................................................................................AATCGTGCATGCATCACTGACCGACCTGAATTCATTTCAAACTGGAGCTTCAGTGTCTGAGGGTCAG................................................................................................................GAAGAAACCTTACCTGTCACTCATTCTGGTGGTCTAGACGAAGTTAGTGTGCCAGCTGAAGATGGTGGCATGGATGTAACACCTGAGAGAGTTTCTTCTCCAATAATCAAGCCTGTTAAATCTATAAAAGCAGGTCAGAAAGCAACCCTCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E345277" ref_strand="+" ref_description="SGN-E345277 [cTOF-13-N17]">
      <seq>taatgcttaaagattgaatttttagcagcaaaaatgtctattgaagaagcagttgatgaggattcgaagcaaaatcataatagtagattaacttatgaaggttgcaatgtattgcttgacatcaatgatggcgaccgtttagttttttctcgtcttactgctgcctcgacattgaaaattgggaataagaagtgttctcttcagcctcttataggttgtccattcgggtctctgtttcaagtggagccgggaaaagaaggaacctttttgactcgttttgttgagaatgcagaaggtaacggccttgaagaaaaagacgtggatggatctaaagacaaccgtgcgcttgttgataataatactgctcagagtctcactagtgaagatattgacgagatgcgaaagcagggagcaaaaggggatgaaatagttgaagcactcattgcaaacagtgcaacttttgagaagaagacattattttcacaagataagtatagggttaagaaacagaagaaatatgcacctcgagtacttttgaggcgcccctttgcacgaagcatttgtgaggcctacttcaagaaacatcctgaaaaaatcggattcatgcgagtggatgcactatctctactgctctccttggggaatgttactgctaatgcagatgtactttgtagtggacatgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="29031" stop="25118"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28731" g_stop="28565" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="167" r_length="167" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="28564" i_stop="28411" i_length="154">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28410" g_stop="28283" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="295" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28282" i_stop="27274" i_length="1009">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27273" g_stop="27165" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="296" r_stop="404" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27164" i_stop="26727" i_length="438">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26726" g_stop="26645" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="405" r_stop="486" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26644" i_stop="26575" i_length="70">
            <donor d_prob="0.615" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26574" g_stop="26504" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="487" r_stop="557" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="26503" i_stop="25827" i_length="677">
            <donor d_prob="0.974" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="25826" g_stop="25785" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="558" r_stop="599" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="25784" i_stop="25503" i_length="282">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.917" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="25502" g_stop="25418" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="600" r_stop="685" r_length="86" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E345277" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>684</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345277" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28731" e_stop="28565"/>
          <exon e_start="28410" e_stop="28283"/>
          <exon e_start="27273" e_stop="27165"/>
          <exon e_start="26726" e_stop="26645"/>
          <exon e_start="26574" e_stop="26504"/>
          <exon e_start="25826" e_stop="25785"/>
          <exon e_start="25502" e_stop="25418"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTCGTAAGTAATTACATCCGATTTTTTTTTGCTTCTGTCTGCTGCATTTAGTTTTGTAATTGAGATATAGTTGATTGATTTTAGTGCATAAAGATGCAGTTTTTTGTTCTGGATTATGGATTTTTGAACTGATGGAGAAGTTGTGTTGTGCATGCAGGACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAGGTATTCTTCTGATTTAGCCTTTTCATCTTCTATGAGTACTGTTTTCTCTGTTCTTCAATTAGTTATTATTACTAAGTTTATTCAACTTGGGGCGGTAGTCATTTACTGGGAGTACTTAGTTTTTGAAGTAGTCAATTACTAAAAAAGGCAGCCAGATACACTAAGCTCTTCCTATGTGCCGATCACGATGTATCATACACATCCTTACCCTCATTTCTGAAAGTGTTCTTTTTCACATCTCAGAGCCCTTGAGTTCACGTGACAGTCTGACAATTTTATGTGTAATGTAATTATATAGCATTACAGATAATAGGGCTAATCAGCCTATTATGTTTAATGGTATATACTTATAATATCTATCTGAAAGATTCTAATGCAAGGTTTTCTCAGAAAAATGCATTGCTTTGTATGGATAATCATCATAGACTCTTTTAGACTTGGAGGGAGCAAGCATGATTAACATAACTCTTTAACTTTATAACAAGGAAGATTACATGGGGTACTTAGACTTCAGTTGATGATATTTTTGCCTGTGCAAATGGCTTTTAGGGGTTGCATTTGTGGACCTTCCTGCCACATTGCAAATACCTTGTTTTTGGATAGAGCCAAAGAATGAGCTCTCGTTTTCCATGACGCATTCAAACATTTTTAGTAAAACCAGAACTAGTCTTCTTTTTAGCTTGGTTTATCCACTACAGTGTATTTCTTGCTTAAGAACCAGTTGAAGCGGGACAGAAGACTAGGATGTAGAGGTAGTATATAATTCTTTGACCAAGCTAGTATGCAAAGATAGACCAAACTAAATATGCTTATGCATCTCATGTTCAAAGGGTATCCCGGTGCACAAAGCATCCCGAGTGTCACACTGGGTTTGGGGAAGGGCCGCACCTGCAGAGTGTGATGTAGACAATCTACCCTTATACATCTCGTGTTACTTTCTCTTATTGTTCTAGTCTCTTTTTAACAAATTGTGGAATTTATAGTAACTTTTGTGCATTTTCATTATCAGGTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAAGTGAGTTTGTCTGAGGTTCATGGTTTTATGTGGTATTGTTTATTTATTTTAGTGGGCAGTTTCAAGAATTGTGGGAAAACCTTGCATAAGAGTCTTTCGAAGGCAGTTTCAAGATACTATTTTAGTGGATATTGATAATGTGTACTTTCAGTTAATTAGACGACCTCTAGGTTTGAGAACTGCAAACTAGTCTGGGATGGTGGTATGCATCATCTGCCGCTGTTTCACTCTGTTTTGGCAAATTTCATTGATATATTAACAGAAAAATTGGAGGCTTCTGAATCCAGAATTTCTATAGATCTATATTATATTTCTTCTGATATGTTTGAACAAATTTTGTTTACAAAAGAGTTCTCTCAAGCAAAAGAAAAGGCTGCAAGATTCTTAGGTTTTCATTTAGCAGTTTTGAAGAGAAGTATTAATCTGACTATGTTGCAGGCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAAGTGAGCTTGGCATTTTTGGTGTTGATTAGTTTTTCTTTGAGAAAATATGCTGACCTCTCATTGTTTGCAGGATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTGCACGAAGGTACACTCCTGTCTTTAAATCTCCTTTAGTTATTCTGGAGATAGACGTACTACTTCCTGATTTTTCCTTCATTTATAACTTAATCTTTGGAGAAGGGGAAGGTAGAACGAGATTGGATAATGTTTTCACTGCATTTCTTTGATATAGCTTAGTAAATAAAACTCTAAGATTGGTAATGTAATCAAAATTAAACAAGTTACTTTCATATGCTGCAAAATGTTGCACGTTCGCCCCAGGTGGAAGAAGGCAGTATTTCTTATTTGAGCAATGATCCAGTAACTGTCTATTTGTTGTAACTAGATTATACCACTTCATTCATGTGGAACACTCAGTTTTTCTGTGGATGAGTATGTCCTCGTATTGCTTTTTGATTAGTAAAGCATTTTAGGGCTTGTGGATTGTGTTTCACTTTTTATGATTTTCTTTTTTTAATTCAGGTGATAAGTAAAACATATAATGGTAGTTTTTCATTAATTTCTTCTAAGCACTATTGTTCTTCAAATCATATAATTGATTGTTCTGCATTTAATTTCTGAACTTGAAATCCCCAAGCTATTAGTGGTGATGTCAGATGTAGATAGTCGTAATACTACATTTGGTTTCTAGTTGCAAATCCCATAGTCGTTATCTTCCTCAATCTTTTCTTTAATTTCTAACATACCTCTTGCATTTTTCAGCATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAATCGGGTAATAATATGGTCTTTTCTTGTGTTTGATCAAATATCTTCATCTGTTGTTTCTGGTTATGATTTGTCTTTTTGATGGGAGGGAAAGAAGGATAGACATTGATAACTTATTTTAGCATCAGAAAATCTTGAAATCTGATATATCCTCCTTGATGTTATTTTTCTTTGTGGTTCAGATGCTCACTGTAGTCTAATAACCCAAAGTTTCATATCTTATTCATTTTGCTTTGCATGATTCTGGGTTTACATGGGGGTTGATTTTATATCCTCTTGATTCCATCAGATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCAAATGCAGATGTAC-TTGTAGTGGACATGCTC</genome_strand>
        <mrna_strand>TAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTC..........................................................................................................................................................GACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAA......................................................................GATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTGCACGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAATCGG..........................................................................................................................................................................................................................................................................................ATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCTAATGCAGATGTACTTTGTAGTGGACATGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E335225" ref_strand="+" ref_description="SGN-E335225 [cTOE-1-G23]">
      <seq>ttcatctaatgcttaaagattgaatttttagcagcaaaaatgtctattgaagaagcagttgatgaggattcgaagcaaaatcataatagtagattaacttatgaaggttgcaatgtattgcttgacatcaatgatggcgaccgtttagttttttctcgtcttactgctgcctcgacattgaaaattgggaataagaagtgttctcttcagcctcttataggttgtccattcgggtctctgtttcaagtggagccgggaaaagaaggaacctttttgactcgttttgttgagaatgcagaaggtaacggccttgaagaaaaagacgtggatggatctaaagacaaccgtgcgcttgttgataataatactgctcagagtctcactagtgaagatattgacgagatgcgaaagcagggagcaaaaggggatgaaatagttgaagcactcattgcaaacagtgcaacttttgagaagaagacattattttcacaagataagtatagggttaagaaacagaagaaatatgcacctcgagtacttttgaggcgcccctttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="29037" stop="26211"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28737" g_stop="28565" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="173" r_length="173" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="28564" i_stop="28411" i_length="154">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28410" g_stop="28283" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="301" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28282" i_stop="27274" i_length="1009">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27273" g_stop="27165" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="302" r_stop="410" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27164" i_stop="26727" i_length="438">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26726" g_stop="26645" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="411" r_stop="492" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26644" i_stop="26575" i_length="70">
            <donor d_prob="0.615" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26574" g_stop="26511" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="556" r_length="64" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E335225" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E335225" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28737" e_stop="28565"/>
          <exon e_start="28410" e_stop="28283"/>
          <exon e_start="27273" e_stop="27165"/>
          <exon e_start="26726" e_stop="26645"/>
          <exon e_start="26574" e_stop="26511"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTCGTAAGTAATTACATCCGATTTTTTTTTGCTTCTGTCTGCTGCATTTAGTTTTGTAATTGAGATATAGTTGATTGATTTTAGTGCATAAAGATGCAGTTTTTTGTTCTGGATTATGGATTTTTGAACTGATGGAGAAGTTGTGTTGTGCATGCAGGACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAGGTATTCTTCTGATTTAGCCTTTTCATCTTCTATGAGTACTGTTTTCTCTGTTCTTCAATTAGTTATTATTACTAAGTTTATTCAACTTGGGGCGGTAGTCATTTACTGGGAGTACTTAGTTTTTGAAGTAGTCAATTACTAAAAAAGGCAGCCAGATACACTAAGCTCTTCCTATGTGCCGATCACGATGTATCATACACATCCTTACCCTCATTTCTGAAAGTGTTCTTTTTCACATCTCAGAGCCCTTGAGTTCACGTGACAGTCTGACAATTTTATGTGTAATGTAATTATATAGCATTACAGATAATAGGGCTAATCAGCCTATTATGTTTAATGGTATATACTTATAATATCTATCTGAAAGATTCTAATGCAAGGTTTTCTCAGAAAAATGCATTGCTTTGTATGGATAATCATCATAGACTCTTTTAGACTTGGAGGGAGCAAGCATGATTAACATAACTCTTTAACTTTATAACAAGGAAGATTACATGGGGTACTTAGACTTCAGTTGATGATATTTTTGCCTGTGCAAATGGCTTTTAGGGGTTGCATTTGTGGACCTTCCTGCCACATTGCAAATACCTTGTTTTTGGATAGAGCCAAAGAATGAGCTCTCGTTTTCCATGACGCATTCAAACATTTTTAGTAAAACCAGAACTAGTCTTCTTTTTAGCTTGGTTTATCCACTACAGTGTATTTCTTGCTTAAGAACCAGTTGAAGCGGGACAGAAGACTAGGATGTAGAGGTAGTATATAATTCTTTGACCAAGCTAGTATGCAAAGATAGACCAAACTAAATATGCTTATGCATCTCATGTTCAAAGGGTATCCCGGTGCACAAAGCATCCCGAGTGTCACACTGGGTTTGGGGAAGGGCCGCACCTGCAGAGTGTGATGTAGACAATCTACCCTTATACATCTCGTGTTACTTTCTCTTATTGTTCTAGTCTCTTTTTAACAAATTGTGGAATTTATAGTAACTTTTGTGCATTTTCATTATCAGGTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAAGTGAGTTTGTCTGAGGTTCATGGTTTTATGTGGTATTGTTTATTTATTTTAGTGGGCAGTTTCAAGAATTGTGGGAAAACCTTGCATAAGAGTCTTTCGAAGGCAGTTTCAAGATACTATTTTAGTGGATATTGATAATGTGTACTTTCAGTTAATTAGACGACCTCTAGGTTTGAGAACTGCAAACTAGTCTGGGATGGTGGTATGCATCATCTGCCGCTGTTTCACTCTGTTTTGGCAAATTTCATTGATATATTAACAGAAAAATTGGAGGCTTCTGAATCCAGAATTTCTATAGATCTATATTATATTTCTTCTGATATGTTTGAACAAATTTTGTTTACAAAAGAGTTCTCTCAAGCAAAAGAAAAGGCTGCAAGATTCTTAGGTTTTCATTTAGCAGTTTTGAAGAGAAGTATTAATCTGACTATGTTGCAGGCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAAGTGAGCTTGGCATTTTTGGTGTTGATTAGTTTTTCTTTGAGAAAATATGCTGACCTCTCATTGTTTGCAGGATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTG</genome_strand>
        <mrna_strand>TTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTC..........................................................................................................................................................GACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAA......................................................................GATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E323733" ref_strand="+" ref_description="SGN-E323733 [cTOC-2-L16]">
      <seq>cttcatctaatgcttaaagattgaatttttagcagcaaaaatgtctattgaagaagcagttgatgaggattcgaagcaaaatcataatagtagattaacttatgaaggttgcaatgtattgcttgacatcaatgatggcgaccgtttagttttttctcgtcttactgctgcctcgacattgaaaattgggaataagaagtgttctcttcagcctcttataggttgtccattcgggtctctgtttcaagtggagccgggaaaagaaggaacctttttgactcgttttgttgagaatgcagaaggtaacggccttgaagaaaaagacgtggatggatctaaagacaaccgtgcgcttgttgataataatactgctcagagtctcactagtgaagatattgacgagatgcgaaagcagggagcaaaaggggatgaaatagttgaagcactcattgcaaacagtgcaacttttgagaagaagacattattttcacaagataagta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="29038" stop="26340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28738" g_stop="28565" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="174" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="28564" i_stop="28411" i_length="154">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.972" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28410" g_stop="28283" g_length="128"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="302" r_length="128" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28282" i_stop="27274" i_length="1009">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="27273" g_stop="27165" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="303" r_stop="411" r_length="109" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27164" i_stop="26727" i_length="438">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="26726" g_stop="26645" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="412" r_stop="493" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="26644" i_stop="26575" i_length="70">
            <donor d_prob="0.615" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="26574" g_stop="26567" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="494" r_stop="501" r_length="8" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E323733" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>501</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323733" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28738" e_stop="28565"/>
          <exon e_start="28410" e_stop="28283"/>
          <exon e_start="27273" e_stop="27165"/>
          <exon e_start="26726" e_stop="26645"/>
          <exon e_start="26574" e_stop="26567"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTCGTAAGTAATTACATCCGATTTTTTTTTGCTTCTGTCTGCTGCATTTAGTTTTGTAATTGAGATATAGTTGATTGATTTTAGTGCATAAAGATGCAGTTTTTTGTTCTGGATTATGGATTTTTGAACTGATGGAGAAGTTGTGTTGTGCATGCAGGACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAGGTATTCTTCTGATTTAGCCTTTTCATCTTCTATGAGTACTGTTTTCTCTGTTCTTCAATTAGTTATTATTACTAAGTTTATTCAACTTGGGGCGGTAGTCATTTACTGGGAGTACTTAGTTTTTGAAGTAGTCAATTACTAAAAAAGGCAGCCAGATACACTAAGCTCTTCCTATGTGCCGATCACGATGTATCATACACATCCTTACCCTCATTTCTGAAAGTGTTCTTTTTCACATCTCAGAGCCCTTGAGTTCACGTGACAGTCTGACAATTTTATGTGTAATGTAATTATATAGCATTACAGATAATAGGGCTAATCAGCCTATTATGTTTAATGGTATATACTTATAATATCTATCTGAAAGATTCTAATGCAAGGTTTTCTCAGAAAAATGCATTGCTTTGTATGGATAATCATCATAGACTCTTTTAGACTTGGAGGGAGCAAGCATGATTAACATAACTCTTTAACTTTATAACAAGGAAGATTACATGGGGTACTTAGACTTCAGTTGATGATATTTTTGCCTGTGCAAATGGCTTTTAGGGGTTGCATTTGTGGACCTTCCTGCCACATTGCAAATACCTTGTTTTTGGATAGAGCCAAAGAATGAGCTCTCGTTTTCCATGACGCATTCAAACATTTTTAGTAAAACCAGAACTAGTCTTCTTTTTAGCTTGGTTTATCCACTACAGTGTATTTCTTGCTTAAGAACCAGTTGAAGCGGGACAGAAGACTAGGATGTAGAGGTAGTATATAATTCTTTGACCAAGCTAGTATGCAAAGATAGACCAAACTAAATATGCTTATGCATCTCATGTTCAAAGGGTATCCCGGTGCACAAAGCATCCCGAGTGTCACACTGGGTTTGGGGAAGGGCCGCACCTGCAGAGTGTGATGTAGACAATCTACCCTTATACATCTCGTGTTACTTTCTCTTATTGTTCTAGTCTCTTTTTAACAAATTGTGGAATTTATAGTAACTTTTGTGCATTTTCATTATCAGGTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAAGTGAGTTTGTCTGAGGTTCATGGTTTTATGTGGTATTGTTTATTTATTTTAGTGGGCAGTTTCAAGAATTGTGGGAAAACCTTGCATAAGAGTCTTTCGAAGGCAGTTTCAAGATACTATTTTAGTGGATATTGATAATGTGTACTTTCAGTTAATTAGACGACCTCTAGGTTTGAGAACTGCAAACTAGTCTGGGATGGTGGTATGCATCATCTGCCGCTGTTTCACTCTGTTTTGGCAAATTTCATTGATATATTAACAGAAAAATTGGAGGCTTCTGAATCCAGAATTTCTATAGATCTATATTATATTTCTTCTGATATGTTTGAACAAATTTTGTTTACAAAAGAGTTCTCTCAAGCAAAAGAAAAGGCTGCAAGATTCTTAGGTTTTCATTTAGCAGTTTTGAAGAGAAGTATTAATCTGACTATGTTGCAGGCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAAGTGAGCTTGGCATTTTTGGTGTTGATTAGTTTTTCTTTGAGAAAATATGCTGACCTCTCATTGTTTGCAGGATAAGTA</genome_strand>
        <mrna_strand>CTTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTC..........................................................................................................................................................GACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAA......................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAA......................................................................GATAAGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E332403" ref_strand="+" ref_description="SGN-E332403 [cTOD-17-C10]">
      <seq>aaacttctctctctctttttctcttatgaaaaagagaacttcttcaacaattgctctgtttttttcccattttcttgctctgtttttaatggcactgttaacatttttaccagaaacatcagaaaaaaatcaaccttcaaagaggaggaaaaaacaacaaaaacagaataaggagaaacaaaagcagccatcttcatgggatcaattcaaaaacttattgacttgtaaacaaattgaaaactcaactgttcatgatcctgcttccaaaaaccctcctccttctgctgctgctgctgctcctgctggagcttactctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaacttcacatcatgatccttcatcttcaagttcgagatctcttgctagatcaaacggtaatggtagctccacatacactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttaccaaggtcaacaatttgtgcatgtcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="31962" stop="33773"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32262" g_stop="32612" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" 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="33084" g_stop="33335" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="603" r_length="252" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33438" g_stop="33473" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="604" r_stop="639" r_length="36" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E332403" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E332403" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32262" e_stop="32612"/>
          <exon e_start="33084" e_stop="33335"/>
          <exon e_start="33438" e_stop="33473"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCC</genome_strand>
        <mrna_strand>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E332209" ref_strand="+" ref_description="SGN-E332209 [cTOD-17-C11]">
      <seq>aaacttctctctctctttttctcttatgaaaaagagaacttcttcaacaattgctctgtttttttcccattttcttgctctgtttttaatggcactgttaacatttttaccagaaacatcagaaaaaaatcaaccttcaaagaggaggaaaaaacaacaaaaacagaataaggagaaacaaaagcagccatcttcatgggatcaattcaaaaacttattgacttgtaaacaaattgaaaactcaactgttcatgatcctgcttccaaaaaccctcctccttctgctgctgctgctgctcctgctggagcttactctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaacttcacatcatgatccttcatcttcaagttcgagatctcttgctagatcaaacggtaatggtagctccacatacactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttacaangtcaacaatttgtgcatgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="31962" stop="33772"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32262" g_stop="32612" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="351" r_length="351" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" 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="33084" g_stop="33335" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="352" r_stop="603" r_length="252" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33438" g_stop="33472" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="604" r_stop="637" r_length="34" r_score="0.943"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E332209" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>638</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E332209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32262" e_stop="32612"/>
          <exon e_start="33084" e_stop="33335"/>
          <exon e_start="33438" e_stop="33472"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTC</genome_strand>
        <mrna_strand>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTA-CAANGTCAACAATTTGTGCATGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E549403" ref_strand="+" ref_description="SGN-E549403 [TUS-70-B14]">
      <seq>ttctcttatgaaaaagagaacttcttcaacaattgctctgtttttttcccattttcttgctctgtttttaatggcactgttaacatttttaccagaaacatcagaaaaaaatcaaccttcaaagaggaggaaaaaacaacaaaaacagaataaggagaaacaaaagcagccatcttcttgggatcaattcaaaaacttattgacttgcaaacaaattgaaaactcaactgttcatgatcctgcttccaaaaaccctcctccttcttcttcttctgctcctactgctggagcttattctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaactttacatcatggtccttcgtcttcaagttcgagatctcttgctagatcgaacggtagtggtagctccacgtatactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttaccaaggtcaacaatttgtgcatgtccagattgtggagaagtttttccaaaaattgagagcttagaacatcatcaagcagttaaacatgctgtgtcagagttgggtccggatgatttcagccgtaacatagtagaaataatcttcaaatcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="31980" stop="35150"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32280" g_stop="32612" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="333" r_length="333" r_score="0.976"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33084" g_stop="33335" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="334" r_stop="585" r_length="252" r_score="0.972"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="586" r_stop="686" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="34791" g_stop="34850" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="687" r_stop="746" r_length="60" r_score="0.933"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E549403" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>746</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E549403" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32280" e_stop="32612"/>
          <exon e_start="33084" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
          <exon e_start="34791" e_stop="34850"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTGGTAAATATTTATATTCGAAAAATCTCAAATACTATCTTAAAAATAAGTATAAATAATTTTCTATAAAACTTGTATAATTAGTATCCTGAAAAGCATATGCTTTAAGTAGTTAAATAGATACAGTATCAAAATGACGTATATTATTCGTGTCTATAAGTTAAATCCTTATATATATTATATTTTCTTTCCTACTTATATTCATATTCCTTTTGTTTAGATTAGGGAGGAGTAGGGGTGGAGTTTATGTGGAAAATCTCTTTTTGGAAAAGTGATATAAAGCTAGTCCACACAAAATAATATATAATCGATAAGATATATAATATAATATATAAACATTATATATGTATAATAACAAGTAAATTTAGATATTTTCTATTGAGCAGTCAAATGTGTAACTTTTTATTTTTAAAATACTCAATTTGCTCGTATTTATCCTAGAAAAGATGATTCCAATCTTGTAAAAGGAGACAAGCTTTAGACAACATTTAAGCTTTGAATTGTTTTAGGCAAAGTTCAAAATTGTGTTAGTGGAGGCAAAACGGAATTGTTAATACAATTTTTATAAAATAATAATATAAAGTACGTTAATTAAATATATTTTTGTGATACATAGGTTGAGCCCCCAATAAATATTTTGCCTTTTTTTTTGGACCACTTAAATATTTAAAGGACCATCTAGAGTAATATTTGCCAACTACCTCTTCATAAAATTGAAAAGTACTATATACATGTAGGAAAATTTTAATTGACAGATAATTAATTTCTCTTTTTATTATCATATACCACACCGACAACATGCATGACACCCTAATTTACAATACTAAATTAATTAATTAAAATATTTTTAGTTTAATAATGTTGAAGATTATTTTATTTTGATTAATTAAGAATGCATACCTAAGAAAGAATCGAATCTTTAATACTGAGATATTACTTGTCTTTGAATTACATACATTTGGTAGCCCACTCTACTTAATAATTAATGTTTTCTTATCTTGTTTAGCTATTTGAGTTCTAATTATTTATCATAAAACTAATTCTGGAATAGCTTATTCCTAAATTATTTCATAATTAGTTAATAACATTAATGTGTTGGTTGGCCAGTAAGACTTGATATCTTACCAACCAGAAATGAGACCCCATTTATTTTCTTTTGTTTTTTTTTTCATATATTTTTTTTATCGAATATTAAAAAATATATATATATTATATGTTTGCGGGTTAATTTTAATTTAAGCCGATTGATTTTCAGTGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAA</genome_strand>
        <mrna_strand>TTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCTTGGGATCAATTCAAAAACTTATTGACTTGCAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTTCTTCTTCTGCTCCTACTGCTGGAGCTTATTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTTACATCATGGTCCTTCGTCTTCAAGTTCGAGATCTCTTGCTAGATCGAACGGTAGTGGTAGCTCCACGTATACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCAGAGTTGGGTCCGGATGATTTCAGCCGTAACATAGTAGAAATAATCTTCAAATCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E358035" ref_strand="+" ref_description="SGN-E358035 [cLHT-32-B11]">
      <seq>tctcttatgaaaaagagaacttcttcaacaattgctctgtttttttcccattttcttgctctgtttttaatggcactgttaacatttttaccagaaacatcagaaaaaaatcaaccttcaaagaggaggaaaaaacaacaaaaacagaataaggagaaacaaaagcagccatcttcttgggatcaattcaaaaacttattgacttgcaaacaaattgaaaactcaactgttcatgatcctgcttccaaaaaccctcctccttcttcttcttctgctcctactgctggagcttattctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaactttacatcatggtccttcgtcttcaagttcgagatctcttgctagatcgaacggtagtggtagctccacgtatactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="31981" stop="33619"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32281" g_stop="32612" g_length="332"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="332" r_length="332" r_score="0.976"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33084" g_stop="33319" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="568" r_length="236" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E358035" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>568</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E358035" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32281" e_stop="32612"/>
          <exon e_start="33084" e_stop="33319"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGA</genome_strand>
        <mrna_strand>TCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCTTGGGATCAATTCAAAAACTTATTGACTTGCAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTTCTTCTTCTGCTCCTACTGCTGGAGCTTATTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTTACATCATGGTCCTTCGTCTTCAAGTTCGAGATCTCTTGCTAGATCGAACGGTAGTGGTAGCTCCACGTATACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729692" ref_strand="+" ref_description="SGN-E729692 [LA21DC05]">
      <seq>aagagaacttcttcttcatcttcttcaacaacaattgctctgtttttttcccattttcttgctctgtttttaatggcactgttaacatttttaccagaaacatcagaaaaaaatcaaccttcaaagaggaggaaaaaacaacaaaaacagaataaggagaaacaaaagcagccatcttcatgggatcaattcaaaaacttattgacttgcaaacaaattgaaaactcaactgttcatgatcctgcttccaaaaaccctcctccttcttcttcttctgctgctgctcctgctccagcttattctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaacttcacatcatggcccttcatcttcgagttcgagatctcttgccagatcgaacggtagtggtagctccgcgtatactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttaccaaggtcaacaatttgtgcatgtccagattgtggagaagtttttccaaaaattgagagcttagaacatcatcaagcagttaaacatgctgtgtcagagttgggtccggaagattcaagccgtaacatagtggaaataatcttcaaatcaagctggcttaaaaaggataatccgatctgtaagatcgaacggatattaaaagtccacaacaccaaacgcacgatccaacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="32000" stop="35229"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32301" g_stop="32612" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="338" r_length="315" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" d_score="0.94"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33084" g_stop="33335" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="339" r_stop="590" r_length="252" r_score="0.964"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="591" r_stop="691" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="34791" g_stop="34929" g_length="139"/>
          <reference_exon_boundary r_type="cDNA" r_start="692" r_stop="830" r_length="139" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E729692" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E729692" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32301" e_stop="32612"/>
          <exon e_start="33084" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
          <exon e_start="34791" e_stop="34929"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCT-C--CTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTGGTAAATATTTATATTCGAAAAATCTCAAATACTATCTTAAAAATAAGTATAAATAATTTTCTATAAAACTTGTATAATTAGTATCCTGAAAAGCATATGCTTTAAGTAGTTAAATAGATACAGTATCAAAATGACGTATATTATTCGTGTCTATAAGTTAAATCCTTATATATATTATATTTTCTTTCCTACTTATATTCATATTCCTTTTGTTTAGATTAGGGAGGAGTAGGGGTGGAGTTTATGTGGAAAATCTCTTTTTGGAAAAGTGATATAAAGCTAGTCCACACAAAATAATATATAATCGATAAGATATATAATATAATATATAAACATTATATATGTATAATAACAAGTAAATTTAGATATTTTCTATTGAGCAGTCAAATGTGTAACTTTTTATTTTTAAAATACTCAATTTGCTCGTATTTATCCTAGAAAAGATGATTCCAATCTTGTAAAAGGAGACAAGCTTTAGACAACATTTAAGCTTTGAATTGTTTTAGGCAAAGTTCAAAATTGTGTTAGTGGAGGCAAAACGGAATTGTTAATACAATTTTTATAAAATAATAATATAAAGTACGTTAATTAAATATATTTTTGTGATACATAGGTTGAGCCCCCAATAAATATTTTGCCTTTTTTTTTGGACCACTTAAATATTTAAAGGACCATCTAGAGTAATATTTGCCAACTACCTCTTCATAAAATTGAAAAGTACTATATACATGTAGGAAAATTTTAATTGACAGATAATTAATTTCTCTTTTTATTATCATATACCACACCGACAACATGCATGACACCCTAATTTACAATACTAAATTAATTAATTAAAATATTTTTAGTTTAATAATGTTGAAGATTATTTTATTTTGATTAATTAAGAATGCATACCTAAGAAAGAATCGAATCTTTAATACTGAGATATTACTTGTCTTTGAATTACATACATTTGGTAGCCCACTCTACTTAATAATTAATGTTTTCTTATCTTGTTTAGCTATTTGAGTTCTAATTATTTATCATAAAACTAATTCTGGAATAGCTTATTCCTAAATTATTTCATAATTAGTTAATAACATTAATGTGTTGGTTGGCCAGTAAGACTTGATATCTTACCAACCAGAAATGAGACCCCATTTATTTTCTTTTGTTTTTTTTTTCATATATTTTTTTTATCGAATATTAAAAAATATATATATATTATATGTTTGCGGGTTAATTTTAATTTAAGCCGATTGATTTTCAGTGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACG</genome_strand>
        <mrna_strand>TTCAACAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGCAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTTCTTCTTCTGCTGCTGCTCCTGCTCCAGCTTATTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGGCCCTTCATCTTCGAGTTCGAGATCTCTTGCCAGATCGAACGGTAGTGGTAGCTCCGCGTATACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E201785" ref_strand="+" ref_description="SGN-E201785 [cLEC-11-H3]">
      <seq>aaaaaccctcctccttctgctgctgctgctgctcctgctggagcttactctaagttgagttcttgtagctccatatgcagtttcagggatgtggtacatggcaacacaagagtggtacatagagctgataattccccagaaagtagcagtttaggccaagaaactcgtcttctaagcaagaataaaacttcacatcatgatccttcatcttcaagttcgagatctcttgctagatcaaacggtaatggtagctccacatacactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttaccaaggtcaacaatttgtgcatgtccagattgtggagaagtttttccaaaaattgagagcttagaacatcatcaagcagttaaacatgctgtgtcagagttgggtccgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="32227" stop="33842"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32527" g_stop="32612" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="86" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471">
            <donor d_prob="0.975" 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="33084" g_stop="33335" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="87" r_stop="338" r_length="252" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="339" r_stop="439" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E201785" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>439</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E201785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="32527" e_stop="32612"/>
          <exon e_start="33084" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAGGTATTAATTACTTAATTAAATCATATTTCCGTAACGTGCGAGTCTGATTCTCTTTTTTTCATAAATCAAATATATAGATTTTTCTCCCCCACAAGTCTTTCGTACCATGTTGAACTGCGTAAACATCTCATAACAAAAAATCAAAGTCAAAATAGTCATTTTACGATCTTATAATTAAAATATACTCGTTTTTTAGGATTCATACATGCATTATTATATGCACTTCTTTTTTTTAACTATATGACTTTACTTATGTTTTCTTTTCGTTTCGATATTTATTATAAATAAAATTTATTTTTTAAAAATAAAAAAGCAAAATCTCTAAATTTATTAATAGTGTCTTAAAATTTTGATTATAAATTGTATTGACTAGGAAGTGATTAGTAGTGTATTTCATCCAAATTTAAATTATTAGAGAAATTATTGATATAATTTTAATTATTTAATTATATTATGTCTCGATATCATTAGGGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG</genome_strand>
        <mrna_strand>AAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E540785" ref_strand="+" ref_description="SGN-E540785 [TUS-61-D20]">
      <seq>ttcaagttcgagatctcttgctagatcaaacggtaatggtagctccacatacactacttcatcaagaggaatgcaatttcgtaagctatctggatgttatgagtgtcacatgatagtagatcctagcaggtaccctttaccaaggtcaacaatttgtgcatgtccagattgtggagaagtttttccaaaaattgagagcttagaacatcatcaagcagttaaacatgctgtgtcagagttgggtccggaagattcaagccgtaacatagtggaaataatcttcaaatcaagctggcttaaaaaggataatccgatctgtaagatcgaacggatattaaaagtccacaacaccaaacgcacgatccaacggttcgaggactgtagggacgcggtgaagatacatgcagtggccacaggcaagaaaaacccaagatgtgcagctgatggaaatgagctgcttagatgttactgcacgagccttacgtgcgtccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagtccgcacaactgctagtagtgggcgggcccacgattgtcttggtagcggtatggcccgacgcaaggccatgatcgtgtgtcgggtcattgctggtagagtcaagcagaatgtgggcgcttctcccacgaaagatgaggaagattgctctggctctggttctggttctggttctggcttgtctgctactggctctacatatacattcagtagctggacatgtagggattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="32907" stop="35681"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="33207" g_stop="33335" g_length="129"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="129" r_length="129" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="130" r_stop="230" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="34791" g_stop="35381" g_length="591"/>
          <reference_exon_boundary r_type="cDNA" r_start="231" r_stop="819" r_length="589" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E540785" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E540785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="33207" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
          <exon e_start="34791" e_stop="35381"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTGGTAAATATTTATATTCGAAAAATCTCAAATACTATCTTAAAAATAAGTATAAATAATTTTCTATAAAACTTGTATAATTAGTATCCTGAAAAGCATATGCTTTAAGTAGTTAAATAGATACAGTATCAAAATGACGTATATTATTCGTGTCTATAAGTTAAATCCTTATATATATTATATTTTCTTTCCTACTTATATTCATATTCCTTTTGTTTAGATTAGGGAGGAGTAGGGGTGGAGTTTATGTGGAAAATCTCTTTTTGGAAAAGTGATATAAAGCTAGTCCACACAAAATAATATATAATCGATAAGATATATAATATAATATATAAACATTATATATGTATAATAACAAGTAAATTTAGATATTTTCTATTGAGCAGTCAAATGTGTAACTTTTTATTTTTAAAATACTCAATTTGCTCGTATTTATCCTAGAAAAGATGATTCCAATCTTGTAAAAGGAGACAAGCTTTAGACAACATTTAAGCTTTGAATTGTTTTAGGCAAAGTTCAAAATTGTGTTAGTGGAGGCAAAACGGAATTGTTAATACAATTTTTATAAAATAATAATATAAAGTACGTTAATTAAATATATTTTTGTGATACATAGGTTGAGCCCCCAATAAATATTTTGCCTTTTTTTTTGGACCACTTAAATATTTAAAGGACCATCTAGAGTAATATTTGCCAACTACCTCTTCATAAAATTGAAAAGTACTATATACATGTAGGAAAATTTTAATTGACAGATAATTAATTTCTCTTTTTATTATCATATACCACACCGACAACATGCATGACACCCTAATTTACAATACTAAATTAATTAATTAAAATATTTTTAGTTTAATAATGTTGAAGATTATTTTATTTTGATTAATTAAGAATGCATACCTAAGAAAGAATCGAATCTTTAATACTGAGATATTACTTGTCTTTGAATTACATACATTTGGTAGCCCACTCTACTTAATAATTAATGTTTTCTTATCTTGTTTAGCTATTTGAGTTCTAATTATTTATCATAAAACTAATTCTGGAATAGCTTATTCCTAAATTATTTCATAATTAGTTAATAACATTAATGTGTTGGTTGGCCAGTAAGACTTGATATCTTACCAACCAGAAATGAGACCCCATTTATTTTCTTTTGTTTTTTTTTTCATATATTTTTTTTATCGAATATTAAAAAATATATATATATTATATGTTTGCGGGTTAATTTTAATTTAAGCCGATTGATTTTCAGTGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTT</genome_strand>
        <mrna_strand>TTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG......................................................................................................GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATGTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAAGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGATGAGGAAGATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTA-CATATAC-ATTCAGTAGCTGGACATGTAGGGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292043" ref_strand="+" ref_description="SGN-E292043 [cLET-7-N12]">
      <seq>ttcgagatctcttgctagatcaaacggtaatggtagctccacatacactacttatcaagaggaatgcaatttcgaagctatctggatgttatgagtgacatgatataatctacaggtacccttaccaaggcaacaattggctgtcagattgggagaagtttcaaaaattgagagcttaaacatataagcagtaaacatgctggtcagagttgggtccggaagattcaagccgtaacatagtggaaataatcttcaaatcaagctggcttaaaaaggataatccgatctgtaagatcgaacggatattaaaagtccacaacaccaaacgcacgatccaacggttcgaggactgtaaggacgcggtgaagatacatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="32913" stop="35265"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="33213" g_stop="33335" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="115" r_length="115" r_score="0.935"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="0.86"/>
            <acceptor a_prob="0.994" a_score="0.86"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="116" r_stop="202" r_length="87" r_score="0.861"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252">
            <donor d_prob="0.995" d_score="0.88"/>
            <acceptor a_prob="0.976" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="34791" g_stop="34965" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="376" r_length="174" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E292043" ref_strand="+">
        <total_alignment_score>0.940</total_alignment_score>
        <cumulative_length_of_scored_exons>399</cumulative_length_of_scored_exons>
        <coverage percentage="1.061" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E292043" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="33213" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
          <exon e_start="34791" e_stop="34965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTGGTAAATATTTATATTCGAAAAATCTCAAATACTATCTTAAAAATAAGTATAAATAATTTTCTATAAAACTTGTATAATTAGTATCCTGAAAAGCATATGCTTTAAGTAGTTAAATAGATACAGTATCAAAATGACGTATATTATTCGTGTCTATAAGTTAAATCCTTATATATATTATATTTTCTTTCCTACTTATATTCATATTCCTTTTGTTTAGATTAGGGAGGAGTAGGGGTGGAGTTTATGTGGAAAATCTCTTTTTGGAAAAGTGATATAAAGCTAGTCCACACAAAATAATATATAATCGATAAGATATATAATATAATATATAAACATTATATATGTATAATAACAAGTAAATTTAGATATTTTCTATTGAGCAGTCAAATGTGTAACTTTTTATTTTTAAAATACTCAATTTGCTCGTATTTATCCTAGAAAAGATGATTCCAATCTTGTAAAAGGAGACAAGCTTTAGACAACATTTAAGCTTTGAATTGTTTTAGGCAAAGTTCAAAATTGTGTTAGTGGAGGCAAAACGGAATTGTTAATACAATTTTTATAAAATAATAATATAAAGTACGTTAATTAAATATATTTTTGTGATACATAGGTTGAGCCCCCAATAAATATTTTGCCTTTTTTTTTGGACCACTTAAATATTTAAAGGACCATCTAGAGTAATATTTGCCAACTACCTCTTCATAAAATTGAAAAGTACTATATACATGTAGGAAAATTTTAATTGACAGATAATTAATTTCTCTTTTTATTATCATATACCACACCGACAACATGCATGACACCCTAATTTACAATACTAAATTAATTAATTAAAATATTTTTAGTTTAATAATGTTGAAGATTATTTTATTTTGATTAATTAAGAATGCATACCTAAGAAAGAATCGAATCTTTAATACTGAGATATTACTTGTCTTTGAATTACATACATTTGGTAGCCCACTCTACTTAATAATTAATGTTTTCTTATCTTGTTTAGCTATTTGAGTTCTAATTATTTATCATAAAACTAATTCTGGAATAGCTTATTCCTAAATTATTTCATAATTAGTTAATAACATTAATGTGTTGGTTGGCCAGTAAGACTTGATATCTTACCAACCAGAAATGAGACCCCATTTATTTTCTTTTGTTTTTTTTTTCATATATTTTTTTTATCGAATATTAAAAAATATATATATATTATATGTTTGCGGGTTAATTTTAATTTAAGCCGATTGATTTTCAGTGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGC</genome_strand>
        <mrna_strand>TTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTT-ATCAAGAGGAATGCAATTTCG-AAGCTATCTGGATGTTATGAGTG--ACATGATA-TA-AT-CTA-CAG......................................................................................................GTACCC-TTACCAAGG-CAACAA-TTG-GC-TGT-CAGATTG-GGAGAAG--TTT-CAAAAATTGAGAGCTTA-AACAT-AT-AAGCAG-TAAACATGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................-GTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAAGGACGCGGTGAAGATACATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266417" ref_strand="+" ref_description="SGN-E266417 [cLEI-3-H17]">
      <seq>caggtattttttaccaaggtcaacaatttgtgcgtgtccagattgtggagaagtttttccaaaaattgagagcttagaacatcatcaagcagttaaacatgctgtgtcagagttgggtccggaagattcaagccgtaacatagtggaaataatcttcaaatcaagctggcttaaaaaggataatccgatctgtaagatcgaacggatattaaaagtccacaacaccaaacgcacgatccaacggttcgaggactgtagggacgcggtgaagatacatgcagtggccacaggcaagaaaaacccaagatgtgcagctgatggaaatgagctgcttagattttactgcacgagccttacgtgcgcccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="33144" stop="35451"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="33333" g_stop="33335" g_length="3"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="3" r_length="3" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102">
            <donor d_prob="0.999" d_score="0.00"/>
            <acceptor a_prob="0.994" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33438" g_stop="33538" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="4" r_stop="104" r_length="101" r_score="0.960"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.976" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="34791" g_stop="35151" g_length="361"/>
          <reference_exon_boundary r_type="cDNA" r_start="105" r_stop="465" r_length="361" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E266417" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>465</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E266417" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="33333" e_stop="33335"/>
          <exon e_start="33438" e_stop="33538"/>
          <exon e_start="34791" e_stop="35151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGGTATAATTTTAATTTCATTTTTCTAATACATTTTATTTGTGATTAATAATCTTGATATATAGCATTAATGAGTGAAAATATTAATTTTAATTTTTTTTATAGGTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTGGTAAATATTTATATTCGAAAAATCTCAAATACTATCTTAAAAATAAGTATAAATAATTTTCTATAAAACTTGTATAATTAGTATCCTGAAAAGCATATGCTTTAAGTAGTTAAATAGATACAGTATCAAAATGACGTATATTATTCGTGTCTATAAGTTAAATCCTTATATATATTATATTTTCTTTCCTACTTATATTCATATTCCTTTTGTTTAGATTAGGGAGGAGTAGGGGTGGAGTTTATGTGGAAAATCTCTTTTTGGAAAAGTGATATAAAGCTAGTCCACACAAAATAATATATAATCGATAAGATATATAATATAATATATAAACATTATATATGTATAATAACAAGTAAATTTAGATATTTTCTATTGAGCAGTCAAATGTGTAACTTTTTATTTTTAAAATACTCAATTTGCTCGTATTTATCCTAGAAAAGATGATTCCAATCTTGTAAAAGGAGACAAGCTTTAGACAACATTTAAGCTTTGAATTGTTTTAGGCAAAGTTCAAAATTGTGTTAGTGGAGGCAAAACGGAATTGTTAATACAATTTTTATAAAATAATAATATAAAGTACGTTAATTAAATATATTTTTGTGATACATAGGTTGAGCCCCCAATAAATATTTTGCCTTTTTTTTTGGACCACTTAAATATTTAAAGGACCATCTAGAGTAATATTTGCCAACTACCTCTTCATAAAATTGAAAAGTACTATATACATGTAGGAAAATTTTAATTGACAGATAATTAATTTCTCTTTTTATTATCATATACCACACCGACAACATGCATGACACCCTAATTTACAATACTAAATTAATTAATTAAAATATTTTTAGTTTAATAATGTTGAAGATTATTTTATTTTGATTAATTAAGAATGCATACCTAAGAAAGAATCGAATCTTTAATACTGAGATATTACTTGTCTTTGAATTACATACATTTGGTAGCCCACTCTACTTAATAATTAATGTTTTCTTATCTTGTTTAGCTATTTGAGTTCTAATTATTTATCATAAAACTAATTCTGGAATAGCTTATTCCTAAATTATTTCATAATTAGTTAATAACATTAATGTGTTGGTTGGCCAGTAAGACTTGATATCTTACCAACCAGAAATGAGACCCCATTTATTTTCTTTTGTTTTTTTTTTCATATATTTTTTTTATCGAATATTAAAAAATATATATATATTATATGTTTGCGGGTTAATTTTAATTTAAGCCGATTGATTTTCAGTGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGT</genome_strand>
        <mrna_strand>CAG......................................................................................................GTATTTTTTACCAAGGTCAACAATTTGTGCGTGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGCCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E372294" ref_strand="+" ref_description="SGN-E372294 [TUS-30-B5](-)">
      <seq>ggtgaagatacatgcagtggccacaggcaagaaaaacccaagatgtgcagctgatggaaatgagctgcttagattttactgcacgagccttacgtgcgtccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagtccgcacaactgctagtagtgggcgggcccacgattgtcttggtagcggtatggcccgacgcagggccatgatcgtgtgtcgggtcattgctggtagagtcaagcagaatgtgggcgcttctcccacgaaagaggaggagaattgctctggctctggttctggttctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34651" stop="35684"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34951" g_stop="35384" g_length="434"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="434" r_length="434" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E372294" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>434</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E372294" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34951" e_stop="35384"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACT</genome_strand>
        <mrna_strand>GGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E372295" ref_strand="+" ref_description="SGN-E372295 [TUS-30-B5]">
      <seq>gtgaagatacatgcagtggccacaggcaagaaaaacccaagatgtgcagctgatggaaatgagctgcttagattttactgcacgagccttacgtgcgtccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagtccgcacaactgctagtagtgggcgggcccacgattgtcttggtagcggtatggcccgacgcagggccatgatcgtgtgtcgggtcattgctggtagagtcaagcagaatgtgggcgcttctcccacgaaagaggaggagaattgctctggctctggttctggttctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34652" stop="35685"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34952" g_stop="35385" g_length="434"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="434" r_length="434" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E372295" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>434</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E372295" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34952" e_stop="35385"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTC</genome_strand>
        <mrna_strand>GTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282785" ref_strand="+" ref_description="SGN-E282785 [cLER-15-K15]">
      <seq>gtgaagatacatgcagtggccacaggcaagaaaaacccaagatgtgcagctgatggaaatgagctgcttagattttactgcacgagccttacgtgcgtccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagtccgcacaactgctagtagtgggcgggcccacgattgtcttggtagcggtatggcccgacgcacggccatgatcgtgtgtcgggtcattgctggtagagtcaagcagaatgtgggcgcttctcccacgaaagaggaggagaattgctctggctctggttctggttctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34652" stop="35684"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34952" g_stop="35384" g_length="433"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="433" r_length="433" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E282785" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34952" e_stop="35384"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACT</genome_strand>
        <mrna_strand>GTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCACGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E540782" ref_strand="+" ref_description="SGN-E540782 [TUS-61-D20](-)">
      <seq>gaaaaacccaagatgtgcagctgatgaaaatgagctgcttagattttactgcacgagctttacgtgcgtccttggtgcacgtggctcgtccagcttgtgtggctcggtacccggttgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggagtccgcacaactgctagtagtgggcgggcccacgattgtcttggtagcggtatggcccgacgcagggccatgatcgtgtgtcgggtcattgctggtagagtcaagcagaatgtgggcgcttctcccacgaaagaggaggagaattgctctggctctggttctggttctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttactcaaatctcgaggaattatacgtatttaatccaagggctatacttccaatgctttgttgtgatatacgaagcattggaatcttaggcttaatgtttttttttttttaatttgtacatgagctgtttgtacggtttagtttgtttttttcttttttgttgtgtccttaaatttatgtaactaatttcaagttagttaaaaaaaagttgtaacacccgtgaggtaatgctgatccaactatgatttttgtaaatatttatttattttaaaaaaaaaaaagaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34681" stop="91081"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="34981" g_stop="35645" g_length="665"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="666" r_length="666" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35646" i_stop="36002" i_length="357">
            <donor d_prob="0.000" d_score="1.00"/>
            <acceptor a_prob="0.953" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="36003" g_stop="36022" g_length="20"/>
          <reference_exon_boundary r_type="cDNA" r_start="667" r_stop="686" r_length="20" r_score="0.650"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E540782" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>685</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E540782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="34981" e_stop="35645"/>
          <exon e_start="36003" e_stop="36022"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCC-ATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCTTTTTACATAGTGTTAGTTTGTTGAAGGTGAGTAAATACAGTGATGTTTGAAGTTTATCTACCCAACTGTACCATAATAAATATCTTAAAATATAGCCCCTCAATTAATGCTTTAAAAAAATGCCGTCCTTCAACATTTAACTTGTCATTTTCTATGTCAATATAGGTTATCCCACTAAATTCTTTCGCTCTTTCATGATTTAAGTTATAAATACTGATAATATAAAAATATTTATGTCTTTATATCAATTTTGTTATTATGAAGATTTATATATCTATAGTACATGATAATGTAGGGAACTTGATCTCTTTTAATTGAATATTTACCTTTGTTGTTCTAAAGCTGCAAGAAATAAAGGTAAA</genome_strand>
        <mrna_strand>GAAAAACCCAAGATGTGCAGCTGATGAAAATGAGCTGCTTAGATTTTACTGCACGAGCTTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCAATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACATGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATT.....................................................................................................................................................................................................................................................................................................................................................................TTAAAAAAAAAAAAGAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E546632" ref_strand="+" ref_description="SGN-E546632 [TUS-70-B14](-)">
      <seq>acccggctgtggagtttgcactaccatacgtcacggtttccaaggaaacaaaactagtggggtccacacaactgctagtagtgggcgggcccacgattgtcttggtagtggtatggcccgacgcagggccatgatcgtgtgtcgggtcattgccggtagagtcaagcagaatgtgggcgcttctcccacgattgaggaggagaattgctctggttctggttctggttctggcttgtctgctactggctctaccatatacgattcagtagctggacatgtagggatttactcgaatctcgaggaattatacgtatttaatccaagggctatacttccatgctttgttgtgatatacgaagcattggaatcttaggcttaatgtttttttttttaatttctacttgagctgtttgtacggtttagtttgtttttttcttttttgttgtgtccttaaatttatgtaactaatttcaagttagttaaaaanaagttgtaacacccgtgagataatgctgatccaactnatgatttttgtaaatatttatttattttatttatttgccctttttacaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34789" stop="35969"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35089" g_stop="35669" g_length="581"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="574" r_length="574" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E546632" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>581</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E546632" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35089" e_stop="35669"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACT-ATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCTTTTTACATA</genome_strand>
        <mrna_strand>ACCCGGCTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGGGTCCACACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGTGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCCGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGATTGAGGAGGAGAA----T-T-GCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACGATTCAGTAGCTGGACATGTAGGGATTTACTCGAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATG--TTTTTTTTTTTAATTTCTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAANAAGTTGTAACACCCGTGAGATAATGCTGATCCAACTNATGATTTTTGTAAATATTTATTTATTTTATTTATTTGCCCTTTTTACAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E218112" ref_strand="+" ref_description="SGN-E218112 [cLEL-23-O7](-)">
      <seq>atgtgggcgcttctcccacgaaagaggaggagaattgctctggctctggttctgattctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttactcaaatctcgaggaattatacgtatttaatccaagggctatacttccatgctttgttgtgatatacgaagcattggaatcttaggcttaatgttttttttttttaatttgtacttgagctgtttgtacggtttagtttgtttttttcttttttgttgtgtccttaaatttatgtaactaatttcaagttagttaaaaaaaagttgtaacacccgtgaggtaatgctgatccacctatgatttttgtaaatacttacttattttatttatttgtcctttttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34959" stop="35969"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35259" g_stop="35669" g_length="411"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="410" r_length="410" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="411" polyA_stop="422"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E218112" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>411</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E218112" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35259" e_stop="35669"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCTTTTTACATA</genome_strand>
        <mrna_strand>ATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGATTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATG-TTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCACCTATGATTTTTGTAAATACTTACTTATTTTATTTATTTGTCCTTTTTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E218036" ref_strand="+" ref_description="SGN-E218036 [cLEL-23-O7](-)">
      <seq>attgctctggctctggttctgattctggttctggcttgtctgctactggctctaccatatacaattcagtagctggacatgtagggatttactcaaatctcgaggaattatacgtatttaatccaagggctatacttccatgctttgttgtgatatacgaagcattggaatcttaggcttaatgttttttttttttaatttgtacttgaactgtttgtacggtttagtttgtttttttcttttttgttgtgtccttaaatttatgtaactaatttcaagttagttaaaaaaaagttgtaacacccgtgaggtaatgctgatccaactatgatttttgtaaatatttatttattttatttatttgtcccctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="34992" stop="35969"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35292" g_stop="35669" g_length="378"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="377" r_length="377" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="378" polyA_stop="389"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E218036" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>378</cumulative_length_of_scored_exons>
        <coverage percentage="0.972" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E218036" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35292" e_stop="35669"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCTTTTTACATA</genome_strand>
        <mrna_strand>ATTGCTCTGGCTCTGGTTCTGATTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATG-TTTTTTTTTTTTAATTTGTACTTGAACTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCCCTTTAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E730175" ref_strand="+" ref_description="SGN-E730175 [LA23BC01]">
      <seq>cataaaagctgtaatgctctctgctacggtttagtttcagcactatgaaagtaacgaacagttatatagttagccaaattcttatattctttcattaaatcctcatcaatattttattgaaattcaactgtttttcatcattattttatttgaaattcaactgttcaaacaaactttttttttttagtgttaaaagttgaaatcttgaaacactctgtttcaacgtcaccatttattgtctctctttttttctccgtcacacaattgaattgatctcactgttacccaaaatgtcggtcaccgttagctcgccggccgtccaatccttccatgtttcacaatcacctcataaaacgatctctaggccacgtgtcattatatctgccgtccgatctactgacagcttaggagtagcaccaattttgacgaagttgcaaaaaaattgtgctactcctcttccagttttgcgccacgtggcggatgcaatggccaataatatgcgggccgggcttgccgtcaacggcggcagtgatctgaaaatgatccttagttatgtcgacactctaccaactgggaatgaaaaaggcttgttttatgcgttggaccttggtggaacaaatttccgggtgctaagggtgcagctaggtggtaaaaaagagcgtgatacccccactgagtttgagcaagtctctataccccaaaaactgatgtttgctacctccaaggaactgttcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="45021" stop="46962"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45321" g_stop="45900" g_length="580"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="574" r_length="574" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45901" i_stop="46510" i_length="610">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.984" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46511" g_stop="46661" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="575" r_stop="725" r_length="151" r_score="0.934"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46662" i_stop="46746" i_length="85">
            <donor d_prob="0.939" d_score="0.96"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46747" g_stop="46757" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="726" r_stop="736" r_length="11" r_score="0.727"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E730175" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>742</cumulative_length_of_scored_exons>
        <coverage percentage="1.008" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E730175" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45321" e_stop="45900"/>
          <exon e_start="46511" e_stop="46661"/>
          <exon e_start="46747" e_stop="46757"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGAAAAGCTGTAATGCTCTCTGCTACGGTTTAGTTTCAGCACTATGAAAGTAACGAACAGTTTTATAGTTAGCCAAATTCTTATATTCTTTCATTAAATCCTCACATCATTATTTTATTGAAATTCAACTGTTTTTCATCATTATTTTATTTGAAATTCAACTGTTCAAACAAACTTTTTTTTTTTTTCAAGTGTTAAAAGTTGAGATCTTCAAACACTCTGTTTCAACGTCACCATTTATTGTCTCTCTTTTTTTCTCCGTCACACAATTGAATTGATCTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGGGTAAACTACTAATTTTATTTTATTTTGGTTCAGTTGTGATATTAATTGGTTGGCCAGCTAATTGGGTAAAGATCCCATTATTTTTACTTTAAGCTATAGTTGGTGTACTTCAATTCTTCAAATGTTTAATTTGATGAACATAATCACAAGGAGTTACATGGTTTAAAGACTTGTCTTTTTCGCCATGTAATGTGTTTGTCATCTCATCTAAAAGCTGAAAGTTGAATAATTGTTATGTTTGAACACGCGGCTACATGTGAGCTTGATTTTTTTCATGGGACGAACACATTGAAATATTTTTTACTTGCGATGATGTTTGAATCAATAATCTCTGGTTGATTTGATACCATATTGATGTGTGTGACTATCTTGTCTAAAAGTTTGAGCATGTTATAGTGTCTTGATTATATATTACTCCCTTCGCTTCATTTATGTGTCTCTAATATTTCCAAGTATGATTTCGATTTGTTCACTTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAGCGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAGGTTGTTTAGTTTTTCTTGTTGTAATGGGATTTGACCAATACTATCTTTTTTGTTGTTGTATTCATCTTTGCATCGGTTATTGTAGGAGCTTTTCGA</genome_strand>
        <mrna_strand>CATAAAAGCTGTAATGCTCTCTGCTACGGTTTAGTTTCAGCACTATGAAAGTAACGAACAGTTATATAGTTAGCCAAATTCTTATATTCTTTCATTAAATCCT--CATCAATATTTTATTGAAATTCAACTGTTTTTCATCATTATTTTATTTGAAATTCAACTGTTCAAACAAAC--TTTTTTTTTTT--AGTGTTAAAAGTTGAAATCTTGAAACACTCTGTTTCAACGTCACCATTTATTGTCTCTCTTTTTTTCTCCGTCACACAATTGAATTGATCTCACTGTTACCCAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCAATCCTTCCATGTTTCACAATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAAAAAAATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCAATAATATGCGGGCCGGGCTTGCCGTCAACGGCGGCAGTGATCTGAAAATGATCCTTAGTTATGTCGACACTCTACCAACTGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATGAAAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGAACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAAAAGAGCGTGATACCCCCACTGAGTTTGAGCAAGTCTCTATACCCCAAAAACTGATGTTTGCTACCTCCAAG.....................................................................................GAACTGTTCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257079" ref_strand="+" ref_description="SGN-E257079 [cLEG-44-L5]">
      <seq>cactctgtggtaacgtcaccatttattgtctctttttttttctccgtcacacaggggaattggggtcactgttacctaaaatgtcggtcaccgttagctcgccggccgtccgatccttccatgtttcacgatcacctcataaaacgatctctaggccacgtgtcattatatctgccggccgatctactgacagcttaggagtagcaccaattttgacgaagttgcagaaagattgtgctactcctcttccagttttgcgccacgtggcggatgcaatggccgatgatatgagggccgggcttgccgtcgacggcggcagtgatctgaagatgatccttagttatgtcgacactctaccaactgggaatgagaaaggcttgttttatgcgttggaccttggtggtacaaatttccgggtgctaagggtgcagctaggtggtaaagaagaacgtgtagtcgccactgagtttgagcaagtctctataccccaagaactgatgtttgctacctccgaggagcttttcgatttcatagcttctgcgctaggaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="45248" stop="47082"/>
      </template>
    </gDNA_segment>
    <predicted_gene_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="45900" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="364" r_length="364" r_score="0.970"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45901" i_stop="46510" i_length="610">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46511" g_stop="46661" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="365" r_stop="515" r_length="151" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46662" i_stop="46746" i_length="85">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46747" g_stop="46782" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="516" r_stop="551" r_length="36" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E257079" ref_strand="+">
        <total_alignment_score>0.977</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E257079" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45537" e_stop="45900"/>
          <exon e_start="46511" e_stop="46661"/>
          <exon e_start="46747" e_stop="46782"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTCTGTTTCAACGTCACCATTTATTGTCTCTCTTTTTTTCTCCGTCACACAATTGAATTGATCTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGGGTAAACTACTAATTTTATTTTATTTTGGTTCAGTTGTGATATTAATTGGTTGGCCAGCTAATTGGGTAAAGATCCCATTATTTTTACTTTAAGCTATAGTTGGTGTACTTCAATTCTTCAAATGTTTAATTTGATGAACATAATCACAAGGAGTTACATGGTTTAAAGACTTGTCTTTTTCGCCATGTAATGTGTTTGTCATCTCATCTAAAAGCTGAAAGTTGAATAATTGTTATGTTTGAACACGCGGCTACATGTGAGCTTGATTTTTTTCATGGGACGAACACATTGAAATATTTTTTACTTGCGATGATGTTTGAATCAATAATCTCTGGTTGATTTGATACCATATTGATGTGTGTGACTATCTTGTCTAAAAGTTTGAGCATGTTATAGTGTCTTGATTATATATTACTCCCTTCGCTTCATTTATGTGTCTCTAATATTTCCAAGTATGATTTCGATTTGTTCACTTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAGCGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAGGTTGTTTAGTTTTTCTTGTTGTAATGGGATTTGACCAATACTATCTTTTTTGTTGTTGTATTCATCTTTGCATCGGTTATTGTAGGAGCTTTTCGATTTCATAGCTTCTGCGCTAGGAAAA</genome_strand>
        <mrna_strand>CACTCTGTGGTAACGTCACCATTTATTGTCTCTTTTTTTTTCTCCGTCACACAGGGGAATTGGGGTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGGCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAACGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAG.....................................................................................GAGCTTTTCGATTTCATAGCTTCTGCGCTAGGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E745064" ref_strand="+" ref_description="SGN-E745064 [GI|67003901]">
      <seq>ggcacgagagatctcactgttacctaaaatgtcggtcaccgttagctcgccggccgtccgatccttccatgtttcacgatcacctcataaaacgatctctaggccacgtgtcattatatctgccgtccgatctactgacagcttaggagtagcaccaattttgacgaagttgcagaaagattgtgctactcctcttccagttttgcgccacgtggcggatgcaatggccgatgatatgagggccgggcttgccgtcgacggcggcagtgatctgaagatgatccttagttatgtcgacactctaccaactgggaatgagaaaggcttgttttatgcgttggaccttggtggtacaaatttccgggtgctaagggtgcagctaggtggtaaagaagagcgtgtagtcgccactgagtttgagcaagtctctataccccaagaactgatgtttgctacctccgaggagcttttcgatttcatagcttctgcgctaggaaaatttgcacaaaaggaaggtggtaattttgagttgcaacagggacggacaagggaaataggattcacgttttcttttccggtgaaacagacttcaataagaactggaatcctaatcaaatggacaaaaggttttgctgtctctggaactgcgggaaaagatgttgttgcttgtctgaatgaagccatggagaggcggggaatggatatgcaagtgtctgccctggtcaatgacactgtgggaacacttgccggagcaagatactgggatgatgatgccatggttgctgtcattcttgggactggaaccaatgcttgctatgtagaacgtgtggatgctattcctaagctggcaaaaaggatgtctaagtctccaataacgattgtgaataccgaatggggagctttctcaaatggccttcctttaactgagtttgatagagaaatggatgccgagagcattaaccctggtgagcagatttttgaaaagaccatctctggtatgtaccttggggaaattgtgagacgggtgctggtcaaaatggccaaggttgggggcttatttggtagcagctatgttccggagaagctagtcactccatttgtgctgaggacacctgatatatgtgccatgcagcaggatacatcaatagatcttgaagctgttgagtctgtcctctatgatgtagctggggtaaaatccgatctaagtgcaaggaaaacagtcgtggacatttgcgatactattgcaaaacgagggggtcgtctagctggtgcaggaattgttggtatattacagaaaatggaggaagattctaaaggtctcatctttggtaaaagaacagttgtagcaatggatggaggcttatatgagcactatcctcagtacagaggatacctccaagaagctgtcacagagctactaggctcggaaatttcgaaaaatgtagtgatagaacattcaaaagatggatctggtattggagctgcattattagctgctgcaaattcaaagtatgaacatgatgattaagggaaaagctaaatttcatgtgttcaaaggtttgcttgaggaaaaatacatgagcatttgtaatttagaatgttctaaagaaggattgatgattggatttatagaggctcttgtttgtgatgccattttttgtactcccattaatgaagtacgaagaagtgaggatttatatagccaaccccaatttatttggaatcgaggcgtagttgtaattgtattatatgcagcactgacttatttatgtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="45298" stop="49705"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="45598" g_stop="45900" g_length="303"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="312" r_length="303" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="45901" i_stop="46510" i_length="610">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.984" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46511" g_stop="46661" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="463" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46662" i_stop="46746" i_length="85">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="46747" g_stop="46929" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="646" r_length="183" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="46930" i_stop="47492" i_length="563">
            <donor d_prob="0.818" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="47493" g_stop="47567" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="647" r_stop="721" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="47568" i_stop="47665" i_length="98">
            <donor d_prob="0.968" d_score="1.00"/>
            <acceptor a_prob="0.929" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="47666" g_stop="47821" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="722" r_stop="877" r_length="156" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="47822" i_stop="47907" i_length="86">
            <donor d_prob="0.966" d_score="1.00"/>
            <acceptor a_prob="0.828" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="47908" g_stop="48003" g_length="96"/>
          <reference_exon_boundary r_type="cDNA" r_start="878" r_stop="973" r_length="96" r_score="1.000"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="48004" i_stop="48105" i_length="102">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.877" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="48106" g_stop="48239" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="974" r_stop="1107" r_length="134" r_score="0.993"/>
        </exon>
        <intron i_serial="7">
          <gDNA_intron_boundary i_start="48240" i_stop="48334" i_length="95">
            <donor d_prob="0.988" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="8">
          <gDNA_exon_boundary g_start="48335" g_stop="48416" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1108" r_stop="1189" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="8">
          <gDNA_intron_boundary i_start="48417" i_stop="48820" i_length="404">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.980" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="9">
          <gDNA_exon_boundary g_start="48821" g_stop="49405" g_length="585"/>
          <reference_exon_boundary r_type="cDNA" r_start="1190" r_stop="1774" r_length="585" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E745064" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1765</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E745064" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="45598" e_stop="45900"/>
          <exon e_start="46511" e_stop="46661"/>
          <exon e_start="46747" e_stop="46929"/>
          <exon e_start="47493" e_stop="47567"/>
          <exon e_start="47666" e_stop="47821"/>
          <exon e_start="47908" e_stop="48003"/>
          <exon e_start="48106" e_stop="48239"/>
          <exon e_start="48335" e_stop="48416"/>
          <exon e_start="48821" e_stop="49405"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGGGTAAACTACTAATTTTATTTTATTTTGGTTCAGTTGTGATATTAATTGGTTGGCCAGCTAATTGGGTAAAGATCCCATTATTTTTACTTTAAGCTATAGTTGGTGTACTTCAATTCTTCAAATGTTTAATTTGATGAACATAATCACAAGGAGTTACATGGTTTAAAGACTTGTCTTTTTCGCCATGTAATGTGTTTGTCATCTCATCTAAAAGCTGAAAGTTGAATAATTGTTATGTTTGAACACGCGGCTACATGTGAGCTTGATTTTTTTCATGGGACGAACACATTGAAATATTTTTTACTTGCGATGATGTTTGAATCAATAATCTCTGGTTGATTTGATACCATATTGATGTGTGTGACTATCTTGTCTAAAAGTTTGAGCATGTTATAGTGTCTTGATTATATATTACTCCCTTCGCTTCATTTATGTGTCTCTAATATTTCCAAGTATGATTTCGATTTGTTCACTTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTGTTTGATTGTTGAGCTTGTTCTTATAGTATTTGTTACAATATATTAATGATTAATGAAGGAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAGCGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAGGTTGTTTAGTTTTTCTTGTTGTAATGGGATTTGACCAATACTATCTTTTTTGTTGTTGTATTCATCTTTGCATCGGTTATTGTAGGAGCTTTTCGATTTCATAGCTTCTGCGCTAGGAAAATTTGCACAAAAGGAAGGTGGTAATTTTGAGTTGCAACAGGGACGGACAAGGGAAATAGGATTCACGTTTTCTTTTCCGGTGAAACAGACTTCAATAAGAACTGGAATCCTAATCAAATGGACAAAAGGTTTTGCTGTCTCTGGAACTGTTAGTATTTCTTGACTCTCTTATTTGTGTAAAGGAGTGGCAGATTTTAGACATCTTACTAATTTAGCCTATGACTGATTCTGGAACCATACATCGCTAAGAAGGCCAATCAATTCTGCGTTATTTTAGTTTCAGTAAAGATGGCCAATTTCCCTCGAACTACTAAAACTTCCAACGAACGTTACGGTTTTACCTTTTTCTGAAGAAAGCACCGGAATCATCTAGTTGGTAAAATCCTGTAATTCCATCCCCAATCGATTGTGCATGTGAGATTTTCTGTTTTCTGGACAACCGAGTGTTTCATATTCGTGAGTCCATTTTTTTCAAGATACAACAAATTTGTAAGAGTACTGGTTACACTATGATAACTGATTAGTAAGTTGTGTAATTAGAGGGATCATTTCATCGCTTTGTTCTTACAAGTCGAATCGGAAAATACTGGATTCCAAACTAGTAGAGAAGATCGAGTTCCTTAACATTGACTTTTAACTTTGTCTCTCTTATCATTATCATTTTCATTTTACCTGCCGATTATTTTTTGATTCCATCATAACATGGAACAGGCGGGAAAAGATGTTGTTGCTTGTCTGAATGAAGCCATGGAGAGGCGGGGAATGGATATGCAAGTGTCTGCCCTGGTAGGTTCTTGCTCAACTTCATGTGTATTGTAGAAATGTTGGAGAATAGTCTGGCGCTTCCTTAGTTCAATCATTTCATGATTTCATTGTCAAGTTAGGTCAATGACACTGTGGGAACACTTGCCGGAGCAAGATACTGGGATGATGATGCCATGGTTGCTGTCATTCTTGGGACTGGAACCAATGCTTGCTATGTAGAACGTGTGGATGCTATTCCTAAGCTGGCAAAAAGGATGTCTAAGTCTCCAATAACGGTAAGTAGAGCCCAAATCTCCTTCGTCAAGTTATTTCATGAACAGATTTTAGCAACCATTGAGTTTGATACATCATTATATTTTAGATTGTGAATACCGAATGGGGAGCTTTCTCAAATGGCCTTCCTTTAACTGAGTTTGATAGAGAAATGGATGCCGAGAGCATTAACCCTGGTGAGCAGGCAAGTATTATTGACTCAAAATGTGAAAATTTCTTTTCTTCGTATTATTGGTATCACACTGTTTCTTAATGGTCTTTTCTACCATCTTATTTCTTGATGAAGATTTTTGAAAAGACCATCTCTGGTATGTACCTTGGGGAAATTGTGAGACGGGTGCTGGTCAAAATGGCCAAGGTTGGGGGCTTATTTGGTAGCAGCTATGTTCCGGAAAAGCTAGTCACTCCATTTGTGCTGAGGTAATTACATCTGTTATATCAGAAGTTTATGATGCAAATGTTCTCGGTTTGTATTAATTAGTTTTTACTCACTCTGTCTGATCTGCATCATATAGGACACCTGATATATGTGCCATGCAGCAGGATACATCAATAGATCTTGAAGCTGTTGAGTCTGTCCTCTATGATGTAGCTGGGGTATATTCCTTAACTCTCGTGTTTTAACTTGCACTGCAATACTCTTTCCAGTCACTTATCTTCTAGGCCAATTTTTTTTCCGATTGAATACTTGTTGTCCAATAATCGATTCATGAAGAACCTTACATTTGAAGATCTATATTCATTCCAAAGACAACATTCAAAAGGATAGTTTAGCATCTGTTTCCATAAACATAGAACATTTTCCAGAGTTATGTTTATAGATATGAAAACACACAATAACAACTACTATTACGCCTCAATCCCAAGCAAGTTTAGGTCAGCAAAAAAATTTAGTCTCTCTAGCACTAGAAGTTCTTTGCAAAAAATATTTTCGTAGAGTATGAAAGAAGTCTACGAACGTTTTGATGTTCACGATTTTTCTTTGGATTATTAAATTTCAGGTAAAATCCGATCTAAGTGCAAGGAAAACAGTCGTGGACATTTGCGATACTATTGCAAAACGAGGGGGTCGTCTAGCTGGTGCAGGAATTGTTGGTATATTACAGAAAATGGAGGAAGATTCTAAAGGTCTCATCTTTGGTAAAAGAACAGTTGTAGCAATGGATGGAGGCTTATATGAGCACTATCCTCAGTACAGAGGATACCTCCAAGAAGCTGTCACAGAGCTACTAGGCTCGGAAATTTCGAAAAATGTAGTGATAGAACATTCAAAAGATGGATCTGGTATTGGAGCTGCATTATTAGCTGCTGCAAATTCAAAGTATGAACATGATGATTAAGGGAAAAGCTAAATTTCATGTGTTCAAAGGTTTGCTTGAGGAAAAATACATGAGCATTTGTAATTTAGAATGTTCTAAAGAAGGATTGATGATTGGATTTATAGAGGCTCTTGTTTGTGATGCCATTTTTTGTACTCCCATTAATGAAGTACGAAGAAGTGAGGATTTATATAGCCAACCCCAATTTATTTGGAATCGAGGCGTAGTTGTAATTGTATTATATGCAGCACTGACTTATTTATGTGA</genome_strand>
        <mrna_strand>GATCTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAGCGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAG.....................................................................................GAGCTTTTCGATTTCATAGCTTCTGCGCTAGGAAAATTTGCACAAAAGGAAGGTGGTAATTTTGAGTTGCAACAGGGACGGACAAGGGAAATAGGATTCACGTTTTCTTTTCCGGTGAAACAGACTTCAATAAGAACTGGAATCCTAATCAAATGGACAAAAGGTTTTGCTGTCTCTGGAACT...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGGGAAAAGATGTTGTTGCTTGTCTGAATGAAGCCATGGAGAGGCGGGGAATGGATATGCAAGTGTCTGCCCTG..................................................................................................GTCAATGACACTGTGGGAACACTTGCCGGAGCAAGATACTGGGATGATGATGCCATGGTTGCTGTCATTCTTGGGACTGGAACCAATGCTTGCTATGTAGAACGTGTGGATGCTATTCCTAAGCTGGCAAAAAGGATGTCTAAGTCTCCAATAACG......................................................................................ATTGTGAATACCGAATGGGGAGCTTTCTCAAATGGCCTTCCTTTAACTGAGTTTGATAGAGAAATGGATGCCGAGAGCATTAACCCTGGTGAGCAG......................................................................................................ATTTTTGAAAAGACCATCTCTGGTATGTACCTTGGGGAAATTGTGAGACGGGTGCTGGTCAAAATGGCCAAGGTTGGGGGCTTATTTGGTAGCAGCTATGTTCCGGAGAAGCTAGTCACTCCATTTGTGCTGAG...............................................................................................GACACCTGATATATGTGCCATGCAGCAGGATACATCAATAGATCTTGAAGCTGTTGAGTCTGTCCTCTATGATGTAGCTGGG....................................................................................................................................................................................................................................................................................................................................................................................................................GTAAAATCCGATCTAAGTGCAAGGAAAACAGTCGTGGACATTTGCGATACTATTGCAAAACGAGGGGGTCGTCTAGCTGGTGCAGGAATTGTTGGTATATTACAGAAAATGGAGGAAGATTCTAAAGGTCTCATCTTTGGTAAAAGAACAGTTGTAGCAATGGATGGAGGCTTATATGAGCACTATCCTCAGTACAGAGGATACCTCCAAGAAGCTGTCACAGAGCTACTAGGCTCGGAAATTTCGAAAAATGTAGTGATAGAACATTCAAAAGATGGATCTGGTATTGGAGCTGCATTATTAGCTGCTGCAAATTCAAAGTATGAACATGATGATTAAGGGAAAAGCTAAATTTCATGTGTTCAAAGGTTTGCTTGAGGAAAAATACATGAGCATTTGTAATTTAGAATGTTCTAAAGAAGGATTGATGATTGGATTTATAGAGGCTCTTGTTTGTGATGCCATTTTTTGTACTCCCATTAATGAAGTACGAAGAAGTGAGGATTTATATAGCCAACCCCAATTTATTTGGAATCGAGGCGTAGTTGTAATTGTATTATATGCAGCACTGACTTATTTATGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E310662" ref_strand="+" ref_description="SGN-E310662 [cLEZ-19-H20]">
      <seq>tctctggcacctcagttgtgaccctgagggctttttgctggtttttacaaattaaagaatcaaagagattttttcaattgtttctacagctgttttgcctgcagatcttctgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtactcacaaggtaatatacagaagatatgcaggattatttttctcactttgtgttgatatcacagacaacgagttggcttatttagagtccatccacttgtttgtggagattttggatcacttcttcagcaatgtctgtgagctggatttggttttcaatttccacaaggtatatctgatattagatgagtttattcttgctggggagctccaggaaacaagtaagagggcaatcatcgagagaatgggagagttggaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52364" stop="55860"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52664" g_stop="52784" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="121" r_length="121" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="220" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="271" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54639" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="445" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="54942" g_stop="55001" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="505" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528">
            <donor d_prob="0.713" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="55530" g_stop="55560" g_length="31"/>
          <reference_exon_boundary r_type="cDNA" r_start="506" r_stop="536" r_length="31" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E310662" 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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E310662" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52664" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54639"/>
          <exon e_start="54942" e_stop="55001"/>
          <exon e_start="55530" e_stop="55560"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTGGCACCTCAGTTGTGACCCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAGGTTAGACATTTCTCATCAAACGTTGCTACTTACAGAAGCAACAAAGTTAATAACATCTTTCTTTCCTGTGATCCCTGTTGTGGCACAATGGTCTTGTTGAATCTTCTAAGATGCCTGTTAAATATTGCTGCTGTATTTTTCTTTTTATATTTTTGTGCCGGCTCTCCAACTTGGTGCTGGTCGTCAAATCCTTAGCTGAGCCTTTTAAGTTAGAAATGAAGAAATATGTTTTTCATTAGTAGAGTCAATGGCACCGTTCTTTACTCATTGTATCATTTATGATCAATTTCTTCCCTCTGCAGGTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGGGTAAGAAATCTGCTTCCCTAATCACCTCTTACCCCCTCCATCCCTCCTCCAGACGTAGGGCCTGTAGCTGGCCAATTTTCTGATCTTTTGATGCTCTCTAGCTTGCCAATTTTTTGATTTTTTGATGCTCGCTAGGTCCTGTAGCTGGCCAATTTTTTGGTATTTTGATGCCCACTCACGCACACTCACACTCACACTCACACTCACACTCACACTCACACATATGGATATGTGTATATACATATGTGTATTGACTGACATGTACATGCTAATTTCAAGGTGTTAATTTTAAAAAAACATATTTAGCAGTGGTCCAAACTATCTCTGCTTAAGCAGGGTAACTAGATATTAGGTGTTGTTTGTCCCTCATCCATGAGAAGACAGATGTTTTGGTTTTGTATATATATTCCTTTGCTCTCTTTCCTCACATCCTGCCCAATGGAATAAAGAAGTTGATGCATATTTGATTCTGCCTCGACTTGTTATCCTATATAAATTTGCACTAAACAACATTCTTTTACACGCCAGGCAATCATCGAGAGAATGGGAGAGTTGGAGA</genome_strand>
        <mrna_strand>TCTCTGGCACCTCAGTTGTGACCCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG..............................................................................................................................................................................................................................................................................................................GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAATCATCGAGAGAATGGGAGAGTTGGAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E711258" ref_strand="+" ref_description="SGN-E711258 [FB01BH02]">
      <seq>cctgagggctttttgctggtttttacaaattaaagaatcaaagagattttttcaattgtttctacagctgttttgcctgcagatcttctgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtactcacaaggtaatatacagaagatatgcaggattatttttctcactttgtgttgatatcacagacaacgagttggcttatttagagtccatccacttgtttgtggagattttggatcacttcttcagcaatgtctgtgagctggatttggttttcaatttccacaaggtatatctgatattagatgagtttattcttgctggggagctccaggaaacaagtaagagggcaatcatcgagagaatgggagagttggagaagcaggagtgaagaactccgatgctttgctcaagagtcaaaacaaacacttgccttttccttcatcacctgcacttctcttccggctggctgtatttactgcattagacattctgtatcccgttgataccttcatgttgatgtggcctcatttaatacaagatttgttcattcatacatttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52386" stop="56044"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52686" g_stop="52784" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="99" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="198" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="199" r_stop="249" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54639" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="423" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="54942" g_stop="55001" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="483" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528">
            <donor d_prob="0.713" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="55530" g_stop="55745" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="484" r_stop="699" r_length="216" r_score="0.995"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="55746" i_stop="55825" i_length="80">
            <donor d_prob="0.653" d_score="0.98"/>
            <acceptor a_prob="0.614" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="55826" g_stop="55833" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="700" r_stop="707" r_length="8" r_score="0.625"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E711258" ref_strand="+">
        <total_alignment_score>0.999</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E711258" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52686" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54639"/>
          <exon e_start="54942" e_stop="55001"/>
          <exon e_start="55530" e_stop="55745"/>
          <exon e_start="55826" e_stop="55833"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAGGTTAGACATTTCTCATCAAACGTTGCTACTTACAGAAGCAACAAAGTTAATAACATCTTTCTTTCCTGTGATCCCTGTTGTGGCACAATGGTCTTGTTGAATCTTCTAAGATGCCTGTTAAATATTGCTGCTGTATTTTTCTTTTTATATTTTTGTGCCGGCTCTCCAACTTGGTGCTGGTCGTCAAATCCTTAGCTGAGCCTTTTAAGTTAGAAATGAAGAAATATGTTTTTCATTAGTAGAGTCAATGGCACCGTTCTTTACTCATTGTATCATTTATGATCAATTTCTTCCCTCTGCAGGTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGGGTAAGAAATCTGCTTCCCTAATCACCTCTTACCCCCTCCATCCCTCCTCCAGACGTAGGGCCTGTAGCTGGCCAATTTTCTGATCTTTTGATGCTCTCTAGCTTGCCAATTTTTTGATTTTTTGATGCTCGCTAGGTCCTGTAGCTGGCCAATTTTTTGGTATTTTGATGCCCACTCACGCACACTCACACTCACACTCACACTCACACTCACACTCACACATATGGATATGTGTATATACATATGTGTATTGACTGACATGTACATGCTAATTTCAAGGTGTTAATTTTAAAAAAACATATTTAGCAGTGGTCCAAACTATCTCTGCTTAAGCAGGGTAACTAGATATTAGGTGTTGTTTGTCCCTCATCCATGAGAAGACAGATGTTTTGGTTTTGTATATATATTCCTTTGCTCTCTTTCCTCACATCCTGCCCAATGGAATAAAGAAGTTGATGCATATTTGATTCTGCCTCGACTTGTTATCCTATATAAATTTGCACTAAACAACATTCTTTTACACGCCAGGCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAATATGAATATCTTTATCTTTTGTTAACTCCAGAAACTATA</genome_strand>
        <mrna_strand>CCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG..............................................................................................................................................................................................................................................................................................................GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAA................................................................................AAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E308425" ref_strand="+" ref_description="SGN-E308425 [cLEY-25-F6]">
      <seq>ttctgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtactcacaaggtaatatacagaagatatgcaggattatttttctcactttgtgttgatatcacagacaacgagttggcttatttagagtccatccacttgtttgtggagattttggatcacttcttcagcaatgtctgtgagctggatttggttttcaatttccacaaggtatatctgatattagatgagtttattcttgctggggagctccaggaaacaagtaagagggcaatcatcgagagaatgggagagttagagaagcaggagtgaagaactccgatgctttgctcaagagtcaaaacaaacacttgccttttccttcatcacctgcacttctcttccggctggctgtatttactgcattagacattctgtatcccgttgataccttcatgttgatgtggcctcatttaatacaagatttgttcattcatacatttaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52630" stop="56044"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52771" g_stop="52784" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="14" r_length="14" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="113" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="114" r_stop="164" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54639" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="338" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="54942" g_stop="55001" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="339" r_stop="398" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528">
            <donor d_prob="0.713" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="55530" g_stop="55745" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="399" r_stop="614" r_length="216" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E308425" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E308425" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52771" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54639"/>
          <exon e_start="54942" e_stop="55001"/>
          <exon e_start="55530" e_stop="55745"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAGGTTAGACATTTCTCATCAAACGTTGCTACTTACAGAAGCAACAAAGTTAATAACATCTTTCTTTCCTGTGATCCCTGTTGTGGCACAATGGTCTTGTTGAATCTTCTAAGATGCCTGTTAAATATTGCTGCTGTATTTTTCTTTTTATATTTTTGTGCCGGCTCTCCAACTTGGTGCTGGTCGTCAAATCCTTAGCTGAGCCTTTTAAGTTAGAAATGAAGAAATATGTTTTTCATTAGTAGAGTCAATGGCACCGTTCTTTACTCATTGTATCATTTATGATCAATTTCTTCCCTCTGCAGGTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGGGTAAGAAATCTGCTTCCCTAATCACCTCTTACCCCCTCCATCCCTCCTCCAGACGTAGGGCCTGTAGCTGGCCAATTTTCTGATCTTTTGATGCTCTCTAGCTTGCCAATTTTTTGATTTTTTGATGCTCGCTAGGTCCTGTAGCTGGCCAATTTTTTGGTATTTTGATGCCCACTCACGCACACTCACACTCACACTCACACTCACACTCACACTCACACATATGGATATGTGTATATACATATGTGTATTGACTGACATGTACATGCTAATTTCAAGGTGTTAATTTTAAAAAAACATATTTAGCAGTGGTCCAAACTATCTCTGCTTAAGCAGGGTAACTAGATATTAGGTGTTGTTTGTCCCTCATCCATGAGAAGACAGATGTTTTGGTTTTGTATATATATTCCTTTGCTCTCTTTCCTCACATCCTGCCCAATGGAATAAAGAAGTTGATGCATATTTGATTCTGCCTCGACTTGTTATCCTATATAAATTTGCACTAAACAACATTCTTTTACACGCCAGGCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAG</genome_strand>
        <mrna_strand>TTCTGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG..............................................................................................................................................................................................................................................................................................................GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAATCATCGAGAGAATGGGAGAGTTAGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295390" ref_strand="+" ref_description="SGN-E295390 [cLET-23-D11]">
      <seq>ctgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtactcacaaggtaatatacagaagatatgcaggattatttttctcactttgtgttgatatcacagacaacgagttggcttatttagagtccatccacttgtttgtggagattttggatcacttcttcagcaatgtctgtgagctggatttggttttcaatttccacaaggtatatctgatattagatgagtttattcttgctggggagctccaggaaacaagtaagagggcaatcatcgagagaatgggagagttggagaagcaggagtgaagaactccgatgctttgctcaagagtcaaaacaaacacttgccttttccttcatcacctgcacttctcttccggctggctgtatttactgcattagacattctgtatcccgttgataccttcatgttgatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52630" stop="56003"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52773" g_stop="52784" g_length="12"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="12" r_length="12" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="13" r_stop="111" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="162" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54639" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="336" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="54942" g_stop="55001" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="337" r_stop="396" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528">
            <donor d_prob="0.713" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="55530" g_stop="55703" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="397" r_stop="570" r_length="174" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E295390" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295390" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52773" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54639"/>
          <exon e_start="54942" e_stop="55001"/>
          <exon e_start="55530" e_stop="55703"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAGGTTAGACATTTCTCATCAAACGTTGCTACTTACAGAAGCAACAAAGTTAATAACATCTTTCTTTCCTGTGATCCCTGTTGTGGCACAATGGTCTTGTTGAATCTTCTAAGATGCCTGTTAAATATTGCTGCTGTATTTTTCTTTTTATATTTTTGTGCCGGCTCTCCAACTTGGTGCTGGTCGTCAAATCCTTAGCTGAGCCTTTTAAGTTAGAAATGAAGAAATATGTTTTTCATTAGTAGAGTCAATGGCACCGTTCTTTACTCATTGTATCATTTATGATCAATTTCTTCCCTCTGCAGGTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGGGTAAGAAATCTGCTTCCCTAATCACCTCTTACCCCCTCCATCCCTCCTCCAGACGTAGGGCCTGTAGCTGGCCAATTTTCTGATCTTTTGATGCTCTCTAGCTTGCCAATTTTTTGATTTTTTGATGCTCGCTAGGTCCTGTAGCTGGCCAATTTTTTGGTATTTTGATGCCCACTCACGCACACTCACACTCACACTCACACTCACACTCACACTCACACATATGGATATGTGTATATACATATGTGTATTGACTGACATGTACATGCTAATTTCAAGGTGTTAATTTTAAAAAAACATATTTAGCAGTGGTCCAAACTATCTCTGCTTAAGCAGGGTAACTAGATATTAGGTGTTGTTTGTCCCTCATCCATGAGAAGACAGATGTTTTGGTTTTGTATATATATTCCTTTGCTCTCTTTCCTCACATCCTGCCCAATGGAATAAAGAAGTTGATGCATATTTGATTCTGCCTCGACTTGTTATCCTATATAAATTTGCACTAAACAACATTCTTTTACACGCCAGGCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGT</genome_strand>
        <mrna_strand>CTGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG..............................................................................................................................................................................................................................................................................................................GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E374620" ref_strand="+" ref_description="SGN-E374620 [TUS-15-D11]">
      <seq>tgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtactcacaaggtaatatacagaagatatgcaggattatttttctcactttgtgttgatatcacagacaacgagttggcttatttagagtccatccacttgtttgtggagattttggatcacttcttcagcaatgtctgtgagctggatttggttttcaatttccacaaggtatatctgatattagatgagtttattcttgctggggagctccaggaaacaagtaagagggcaatcatcgagagaatgggagagttggagaagcaggagtgaagaactccgatgctttgctcaagagtcaaaacaaacacttgccttttccttcatcacctgcacttctcttccggctggctgtatttactgcattagacattctgtatcccgttgataccttcatgttgatgtggcctcatttaatacaagatttgttcattcatacatttaaaggtagtttgcaagtttaaatatgaatgtctctatctattcccagtttaaatatgaatatctttatcttttgttaactccaaaaactatattgttgttggaagtaggaaaagggttatttcaatccgaaaaaaaaaaaaaaaaaaaaaaaaaaaaaataaaaaaaaaacctcgaggggggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52630" stop="56173"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52774" g_stop="52784" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="11" r_length="11" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="110" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="111" r_stop="161" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54639" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="335" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="54942" g_stop="55001" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="395" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528">
            <donor d_prob="0.713" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="55530" g_stop="55872" g_length="343"/>
          <reference_exon_boundary r_type="cDNA" r_start="396" r_stop="738" r_length="343" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="740" polyA_stop="777"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E374620" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E374620" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52774" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54639"/>
          <exon e_start="54942" e_stop="55001"/>
          <exon e_start="55530" e_stop="55872"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAGGTTAGACATTTCTCATCAAACGTTGCTACTTACAGAAGCAACAAAGTTAATAACATCTTTCTTTCCTGTGATCCCTGTTGTGGCACAATGGTCTTGTTGAATCTTCTAAGATGCCTGTTAAATATTGCTGCTGTATTTTTCTTTTTATATTTTTGTGCCGGCTCTCCAACTTGGTGCTGGTCGTCAAATCCTTAGCTGAGCCTTTTAAGTTAGAAATGAAGAAATATGTTTTTCATTAGTAGAGTCAATGGCACCGTTCTTTACTCATTGTATCATTTATGATCAATTTCTTCCCTCTGCAGGTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGGGTAAGAAATCTGCTTCCCTAATCACCTCTTACCCCCTCCATCCCTCCTCCAGACGTAGGGCCTGTAGCTGGCCAATTTTCTGATCTTTTGATGCTCTCTAGCTTGCCAATTTTTTGATTTTTTGATGCTCGCTAGGTCCTGTAGCTGGCCAATTTTTTGGTATTTTGATGCCCACTCACGCACACTCACACTCACACTCACACTCACACTCACACTCACACATATGGATATGTGTATATACATATGTGTATTGACTGACATGTACATGCTAATTTCAAGGTGTTAATTTTAAAAAAACATATTTAGCAGTGGTCCAAACTATCTCTGCTTAAGCAGGGTAACTAGATATTAGGTGTTGTTTGTCCCTCATCCATGAGAAGACAGATGTTTTGGTTTTGTATATATATTCCTTTGCTCTCTTTCCTCACATCCTGCCCAATGGAATAAAGAAGTTGATGCATATTTGATTCTGCCTCGACTTGTTATCCTATATAAATTTGCACTAAACAACATTCTTTTACACGCCAGGCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAATATGAATATCTTTATCTTTTGTTAACTCCAGAAACTATATTGTTGTTGGAAGTAGGAAAAGGGTTATTTCAATACGAA</genome_strand>
        <mrna_strand>TGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG..............................................................................................................................................................................................................................................................................................................GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAATATGAATATCTTTATCTTTTGTTAACTCCAAAAACTATATTGTTGTTGGAAGTAGGAAAAGGGTTATTTCAATCCGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E204176" ref_strand="+" ref_description="SGN-E204176 [cLEC-13-A6]">
      <seq>tgaacaaaatgatccgttttatattgcttcagaacaggcaaggaaagactcgtttggctaagtattatatacctcttgaggaatccgagaagcacaaggtggaatatgaggttcataggttggttgtgaatagagatcccaaattcaccaactttgttgagttccgtgctcacaaggtaatatacagaagatatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52630" stop="54799"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52774" g_stop="52784" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="11" r_length="11" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.799" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="52931" g_stop="53029" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="110" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82">
            <donor d_prob="0.951" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="53112" g_stop="53162" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="111" r_stop="161" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303">
            <donor d_prob="0.978" d_score="1.00"/>
            <acceptor a_prob="0.658" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="54466" g_stop="54499" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="195" r_length="34" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E204176" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>195</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E204176" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52774" e_stop="52784"/>
          <exon e_start="52931" e_stop="53029"/>
          <exon e_start="53112" e_stop="53162"/>
          <exon e_start="54466" e_stop="54499"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAACAAAATGGTAACTTTTTTCTCTTCTCTTTGATCTCACTGAAAATTATTTGGTAGCAGAAATTACAATCATTTTGTTTTCAATTTCATGAATTTGCTGTTCTGATTGATTTTTGATCGTTTGTTTTCAACTGGGTCATCTCGAAAAATGGGTAGATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAGGTATTTTAGTTTTTTTTTTTATGTGAATTTGGTGATTTTAGATTATGGGTTTTGATTATATAGTCAATTTTGGTCCTTGTAGGTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAGGTAATCAAGCCTGATTTTTTTTTTTTAAATTTCAGTTGATGGAAGCTAGCATTTCTCTGATTAAGCCCTTTTATGTATGTGGAGTTGAGTTTAACTTGATCAGCTTGAAATGCAAAAAGCGAAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATATTATATTTTTGTAAAATATGATAGAAAACAACTGAGTGTGAGCAATAAGGAAAATCAATAGCTTTTCTGCTGAAACCTCATCAGAATTGATGAAAGAAGTTAATCTAGCGATTTTTTATTTGATGATGGAGCTGCTTAACTTACTTCAGTAATAGGTTGCACGAGATTTACATCTCTGGCTGATTTCAGTCTCCACTTCTTTTCAGTTTTTGTGTAGATATGTTCCTTCATAAGTCACTAATAACTAACACCTGCTAGTTATCTCCTCTTTGCAGTTCCGTACTCACAAGGTAATATACAGAAGATATG</genome_strand>
        <mrna_strand>TGAACAAAATG..................................................................................................................................................ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG..................................................................................GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTCCGTGCTCACAAGGTAATATACAGAAGATATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E251645" ref_strand="+" ref_description="SGN-E251645 [cLEG-15-M10]">
      <seq>aaaatgtgattatctgtcttgttttcgatctatagaacaccatactaagcgaatttgctacaattgtgctaaggcaaagggttctctttcgctagcctttaattttctaaaagtagtaatgtgtaactatcttatactgtgagaggatgatgtcctcttggtggagaactattttgctttccctctacactacgcctgcacattatcatgacatttcacattattggtgaagtaatatcaagatggattatcgtatttatctaccattgcatcataaatacttgttccgttggtatcaaaggaataactttgtgaaatgattgaaggatagggagtggtgggggattcaagatattgttcaaaatttaatttctgtgtagagtaacctatgttatggcttagtatgaaattcttattgagacatttctccgtacctacatgtggtttcctaatacaggatcttggctttagaaaatttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="52984" stop="54062"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53284" g_stop="53763" g_length="480"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="480" r_length="480" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E251645" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>480</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E251645" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53284" e_stop="53763"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAG</genome_strand>
        <mrna_strand>AAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTGTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACACTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGATTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTGGTTTCCTAATACAGGATCTTGGCTTTAGAAAATTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E689068" ref_strand="+" ref_description="SGN-E689068 [t3_tus_55_P11]">
      <seq>gtaatatcaagatggtttatcgtatttatctaccattgcatcataaatacttgttccgttggtatcaaaggaataactttgtgaaatgattgaaggatagggagtggtgggggattcaagatattgttcaaaatttaatttctgtgtagagtaacctatgttatggcttagtatgaaattcttattgagacatttctccgtacctacatgttgtttcctaattcagtatcttggctttagaaaatttagaggttggaagagagtgggagagtggagggagggaaggatcaagaaagaagagccatttcccttttgcttgtgcatgattagaggatttatttagaatcatatacagactactttttatgcatcattctagcttcaatattgngtgtaatattcctgngatctgatttcttaaagaatcaaaaaatgttaacctgcaaaaggaaacaaaagaagcattgtgttttaactttgttgggtaatcctttctcatgagatgcttcgtgaagtataacatactatttaaaagtcctcgatgacataaagtacaaagcaagatatcggacagaagctcttttttcctaagtaagtgatttatccttggagctgtaagggggaaggtaaagccaaggaagagagagaaaaccagtttgaggtttgaacttgtgtata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="53215" stop="54490"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53515" g_stop="54190" g_length="676"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="678" r_length="678" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E689068" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E689068" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53515" e_stop="54190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTG-GTGTAATATTCCTG-GATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATA</genome_strand>
        <mrna_strand>GTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGNGTGTAATATTCCTGNGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCCAAGGAAGAGAGAGAAAACCAGTTTGAGGTTTGAACTTGTGTATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E551238" ref_strand="+" ref_description="SGN-E551238 [TUS-55-P11]">
      <seq>gtaatatcaagatggtttatcgtatttatctaccattgcatcataaatacttgttccgttggtatcaaaggaataactttgtgaaatgattgaaggatagggagtggtgggggattcaagatattgttcaaaatttaatttctgtgtagagtaacctatgttatggcttagtatgaaattcttattgagacatttctccgtacctacatgttgtttcctaattcagtatcttggctttagaaaatttagaggttggaagagagtgggagagtggagggagggaaggatcaagaaagaagagccatttcccttttgcttgtgcatgattagaggatttatttagaatcatatacagactactttttatgcatcattctagcttcaatattgngtgtaatattcctgngatctgatttcttaaagaatcaaaaaatgttaacctgcaaaaggaaacaaaagaagcattgtgttttaactttgttgggtaatcctttctcatgagatgcttcgtgaagtataacatactatttaaaagtcctcgatgacataaagtacaaagcaagatatcggacagaagctcttttttcctaagtaagtgattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="53215" stop="54414"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53515" g_stop="54114" g_length="600"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="602" r_length="602" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E551238" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>600</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E551238" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53515" e_stop="54114"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTG-GTGTAATATTCCTG-GATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTT</genome_strand>
        <mrna_strand>GTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGNGTGTAATATTCCTGNGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E265123" ref_strand="+" ref_description="SGN-E265123 [cLEI-2-E19]">
      <seq>taatatcaagatggtttatcgtatttatctaccattgcatcataaatacttgttccgttggtatcaggaggaataactttgtgaaatgattgaaggatagggagtggtgggggattcaagatattgttcaaaatttaatttctgtgtagagtaacctatgttatggcttactatgaaattcttattgagacatttctccgtacctacatgttgtttcctaattcagtatcttggctttagaaaatttagaggttggaagagagtgggagagtggagggagggaatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="53216" stop="54101"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53516" g_stop="53801" g_length="286"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="287" r_length="287" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E265123" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>286</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E265123" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53516" e_stop="53801"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCA-AAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGA</genome_strand>
        <mrna_strand>TAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAGGAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTACTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E308564" ref_strand="+" ref_description="SGN-E308564 [cLEY-21-I3]">
      <seq>tttactgcattagacattctgtatcccgttgataccttcatgttgatgtggcctcatttaatacaagatttgttcattcatacatttaaaggtagtttgcaagtttaaatatgaatgtctctatctattcccagtttaaaaacaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="55355" stop="56102"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55655" g_stop="55799" g_length="145"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="145" r_length="145" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E308564" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>145</cumulative_length_of_scored_exons>
        <coverage percentage="0.948" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E308564" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55655" e_stop="55799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAATATGA</genome_strand>
        <mrna_strand>TTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAAAACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E227747" ref_strand="+" ref_description="SGN-E227747 [cLEL-39-C5](-)">
      <seq>tttcaattgattatagagtaacaacttcagaaatggttgttggtttttccctagatggaaagaaactttatgtgtctgagaaggttattgacttgtagtatacacaagaagaagaatggcaatgaaaaaaattgcagctgctttaaatttctttcagcaattttcaggaaaataaagtgttcttttataaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="56769" stop="55979"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="56469" g_stop="56280" g_length="190"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="190" r_length="190" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="191" polyA_stop="206"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E227747" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>190</cumulative_length_of_scored_exons>
        <coverage percentage="0.922" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E227747" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="56469" e_stop="56280"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCAATTAATTATAGAGTAACAACTTCAGAAATGGTTGTTGGTTTTTCCCTAGATGGAAAGAAACTTTATGTGTCTGAGAAGGTTATTGACTTGTAGTATACACAAGAAGAAGAATGGCAATGAAAAAAATTGCAGCTGCTTTAAATTTCTTTCAGCAATTTTCAGGAAAATAAAGTGTTCTTTTATAC</genome_strand>
        <mrna_strand>TTTCAATTGATTATAGAGTAACAACTTCAGAAATGGTTGTTGGTTTTTCCCTAGATGGAAAGAAACTTTATGTGTCTGAGAAGGTTATTGACTTGTAGTATACACAAGAAGAAGAATGGCAATGAAAAAAATTGCAGCTGCTTTAAATTTCTTTCAGCAATTTTCAGGAAAATAAAGTGTTCTTTTATAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E375603" ref_strand="+" ref_description="SGN-E375603 [TUS-35-C1](-)">
      <seq>cagtacaagtttggtggagtctctacctcacaaatgcgagactggcaaaatgcagggcgaccaatgcctatctttggaccttctcaagctcaattggcagcttcttcttcctcgatggaagcactttcttccaagtatgttccacccttgttgaacgagcaggagcttatgtccatttttacgtcacgaactaattcaaggatcaaaggacaatattacagtttcccttctggcttggaaggaagtggacatggactctaccccaataatgtgccttcattgcagcttctttgcaatgatcgtcgttaatacggagagccatggcaccatgtccataatatcagagcgaaactcctgcaaatcataattgatttattcttttctttgcttatgcatgagagttggtgttcattctgttactgaatataaggaacacaaaaaagggaggatatagtaaatttcatgtcccttattagatgcttattctgtttcagtttcaattaattatagagtaacaacttcagaaatggttgttggtttttccctagatggaaagaaactttatgtgtctgagaaggttattgacttgtagtatacacaagaagaagaatggcaatgaaaaaaattgcagctgctttaaatttctttcagcaattttcaggaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="57263" stop="55994"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="56963" g_stop="56290" g_length="674"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="674" r_length="674" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E375603" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>674</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E375603" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="56963" e_stop="56290"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGTACAAGTTTGGTGGAGTCTCTACCTCACAAATGCGAGACTGGCAAAATGCAGGGCGACCAATGCCTATCTTTGGACCTTCTCAAGCTCAATTGGCAGCTTCTTCTTCCTCGATGGAAGCACTTTCTTCCAAGTATGTTCCACCCTTGTTGAACGAGCAGGAGCTTATGTCCATTTCTACGTCACGAACTAATTCAAGGATCAAAGGACAATATTACAGTTTCCCTTCTGGCTTGGAAGGAAGTGGACATGGACTCTACCCCAATAATGTGCCTTCATTGCAGCTTCTTTGCAATGATCGTCGTTAATACGGAGAGCCATGGCACCATGTCCATAATATCAGAGCGAAACTCCTGCAAATCATAATTGATTTATTCTTTTCTTTGCTTATGCATGAGAGTTGGTGTTCATTCTGTTACTGAATATAAGGAACACAAAAAAGGGAGGATATAGTAAATCTCATGTCCCTTATTAGATGCTTATTCTGTTTCAGTTTCAATTAATTATAGAGTAACAACTTCAGAAATGGTTGTTGGTTTTTCCCTAGATGGAAAGAAACTTTATGTGTCTGAGAAGGTTATTGACTTGTAGTATACACAAGAAGAAGAATGGCAATGAAAAAAATTGCAGCTGCTTTAAATTTCTTTCAGCAATTTTCAGGAAAATAAAGTGT</genome_strand>
        <mrna_strand>CAGTACAAGTTTGGTGGAGTCTCTACCTCACAAATGCGAGACTGGCAAAATGCAGGGCGACCAATGCCTATCTTTGGACCTTCTCAAGCTCAATTGGCAGCTTCTTCTTCCTCGATGGAAGCACTTTCTTCCAAGTATGTTCCACCCTTGTTGAACGAGCAGGAGCTTATGTCCATTTTTACGTCACGAACTAATTCAAGGATCAAAGGACAATATTACAGTTTCCCTTCTGGCTTGGAAGGAAGTGGACATGGACTCTACCCCAATAATGTGCCTTCATTGCAGCTTCTTTGCAATGATCGTCGTTAATACGGAGAGCCATGGCACCATGTCCATAATATCAGAGCGAAACTCCTGCAAATCATAATTGATTTATTCTTTTCTTTGCTTATGCATGAGAGTTGGTGTTCATTCTGTTACTGAATATAAGGAACACAAAAAAGGGAGGATATAGTAAATTTCATGTCCCTTATTAGATGCTTATTCTGTTTCAGTTTCAATTAATTATAGAGTAACAACTTCAGAAATGGTTGTTGGTTTTTCCCTAGATGGAAAGAAACTTTATGTGTCTGAGAAGGTTATTGACTTGTAGTATACACAAGAAGAAGAATGGCAATGAAAAAAATTGCAGCTGCTTTAAATTTCTTTCAGCAATTTTCAGGAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E703524" ref_strand="+" ref_description="SGN-E703524 [FA21DA05]">
      <seq>aaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcattgttgtggccaggcttgtctgcagcagggtcatcttgttccgacatacttgattcttcaccacagtttccaattggcaaatttcctgtctggatcgggagcgctggcactgatcatcaagctcaaaatgcaaaatcttgtctaccaaccatgaaggattctcaagttccacttgagttgaggaagtcatttaagaggtgtgctgctcatgtttatataagtcggctgactaagggcttacagacttcgatgagaggtgacacagtctcctcgcatccttctcagtcctcacctcctgatggagtgaagcaagagcctcctataattcagaacagcccaactgtaaaggtgaatgatatgcatggaattgtttctactgggaatgttgcctctactgttgagaagaatccaactgaagttagaaatgcaatccttttgcaccaaagactcctccaagatcagcaacaggcttctactacatctgggttcaattctttaccaaagcagaatgcagatttcctttcattgtca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59472" stop="57504"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59172" g_stop="59097" g_length="76"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="76" r_length="76" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="255" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="256" r_stop="310" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58579" g_stop="58510" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="311" r_stop="380" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="58433" g_stop="58343" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="381" r_stop="471" r_length="91" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58342" i_stop="58247" i_length="96">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58246" g_stop="57896" g_length="351"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="822" r_length="351" r_score="0.997"/>
        </exon>
        <intron i_serial="6">
          <gDNA_intron_boundary i_start="57895" i_stop="57828" i_length="68">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.987" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="7">
          <gDNA_exon_boundary g_start="57827" g_stop="57804" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="823" r_stop="846" r_length="24" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E703524" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>846</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703524" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59172" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58510"/>
          <exon e_start="58433" e_stop="58343"/>
          <exon e_start="58246" e_stop="57896"/>
          <exon e_start="57827" e_stop="57804"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACAGTAAGTTCCCATTTCTTACCGCACTCTTCCTTGCCTACAAATATTGTTTGGTTTCTCATGCACCGAGTAATGATAGGTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAGGTGTTTTAGCACTTCGATATAGCTTTCAGTTACTCTCATGTACTTTGTTCCATTCTGAACAACTATATGGAACACTCATTTGATTTGATTATGCAGGATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCTCATGTTTATATAAGTCGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCCTCGCATCCTTCTCAGTCCTCACCTCCTGATGGAGTGAAGCAAGAGCCTCCTATAATTCAGAACAGCCCAACTGTAAAGGTGAATGATATGCATGGAATTGTTTCTACTGGGAATGTTGCCTCTACTGTTGAGAAGAATCCAACTGAAGTTAGAAATGCAATCCTTTTGCACCAAAGACTCCTCCAAGATCAGCAACAGGCTTCTACTACATCTGGGTTCAATTCTTTAGCAAAGCAGGTTAGTTATCTTCAATAATGTGTGATATTCTTCATCCATACACGATAATAATCCTCTTTCTTTCGCAGAATGCAGATTTCCTTTCATTGTCA</genome_strand>
        <mrna_strand>AAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA............................................................................GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAG................................................................................................GATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCTCATGTTTATATAAGTCGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCCTCGCATCCTTCTCAGTCCTCACCTCCTGATGGAGTGAAGCAAGAGCCTCCTATAATTCAGAACAGCCCAACTGTAAAGGTGAATGATATGCATGGAATTGTTTCTACTGGGAATGTTGCCTCTACTGTTGAGAAGAATCCAACTGAAGTTAGAAATGCAATCCTTTTGCACCAAAGACTCCTCCAAGATCAGCAACAGGCTTCTACTACATCTGGGTTCAATTCTTTACCAAAGCAG....................................................................AATGCAGATTTCCTTTCATTGTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E709386" ref_strand="+" ref_description="SGN-E709386 [FA51DA05]">
      <seq>cgttaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagacgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcattgttgtggccaggcttgtctgcagcagggtcatcttgttccgacatacttgattcttcaccacagtttccaattggcaaatttcctgtctggatcgggagcgctggcactgatcatcaagctcaaaatgcaaaatcttgtctaccaaccatgaaggattctcaagttccacttgagttgaggaagccatttaagaggtgtgctgctccatgtttatataagtccggctaactaagggcttacagacttccatgagaggtgacacagtctccttcgcatccttctcagtcctcaccctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59549" stop="57807"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59253" g_stop="59097" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="157" r_length="157" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="158" r_stop="336" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="337" r_stop="391" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58579" g_stop="58510" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="392" r_stop="461" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="58433" g_stop="58343" g_length="91"/>
          <reference_exon_boundary r_type="cDNA" r_start="462" r_stop="552" r_length="91" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58342" i_stop="58247" i_length="96">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58246" g_stop="58107" g_length="140"/>
          <reference_exon_boundary r_type="cDNA" r_start="553" r_stop="696" r_length="144" r_score="0.921"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E709386" ref_strand="+">
        <total_alignment_score>0.977</total_alignment_score>
        <cumulative_length_of_scored_exons>692</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E709386" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59253" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58510"/>
          <exon e_start="58433" e_stop="58343"/>
          <exon e_start="58246" e_stop="58107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACAGTAAGTTCCCATTTCTTACCGCACTCTTCCTTGCCTACAAATATTGTTTGGTTTCTCATGCACCGAGTAATGATAGGTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAGGTGTTTTAGCACTTCGATATAGCTTTCAGTTACTCTCATGTACTTTGTTCCATTCTGAACAACTATATGGAACACTCATTTGATTTGATTATGCAGGATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCT-CATGTTTATATAAGT-CGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCC-TCGCATCCTTCTCAGTCCTCA-CCTCC</genome_strand>
        <mrna_strand>CGTTAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGACGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA............................................................................GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAG................................................................................................GATTCTCAAGTTCCACTTGAGTTGAGGAAGCCATTTAAGAGGTGTGCTGCTCCATGTTTATATAAGTCCGGCTAACTAAGGGCTTACAGACTTCCATGAGAGGTGACACAGTCTCCTTCGCATCCTTCTCAGTCCTCACCCTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E248048" ref_strand="+" ref_description="SGN-E248048 [cLEF-47-B21]">
      <seq>tttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggaggagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcattgttgtggccaggcttgtctgcagcagggtcatcttgttccgacatacttgattcttcaccacagtttccaattggcaaatttcctgtctggatcgggagcgctggcactgatcatcaagctcaaaatgcaaaatcttgtcta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59822" stop="58055"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59522" g_stop="59438" g_length="85"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="85" r_length="85" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="86" r_stop="293" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="472" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="527" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" 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="58579" g_stop="58510" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="528" r_stop="597" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58433" g_stop="58355" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="598" r_stop="676" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E248048" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E248048" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59522" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58510"/>
          <exon e_start="58433" e_stop="58355"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACAGTAAGTTCCCATTTCTTACCGCACTCTTCCTTGCCTACAAATATTGTTTGGTTTCTCATGCACCGAGTAATGATAGGTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTA</genome_strand>
        <mrna_strand>TTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA............................................................................GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E378710" ref_strand="+" ref_description="SGN-E378710 [TUS-35-C1]">
      <seq>ttcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcggggcggtgtataaaggaagagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcggcagagagcgggtanaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcattgttgtggccaggcttgtctgcagcagggtcatcttgttccgacatacttgattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59844" stop="58218"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59544" g_stop="59438" g_length="107"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="107" r_length="107" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="108" r_stop="315" r_length="208" r_score="0.981"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="316" r_stop="494" r_length="179" r_score="0.966"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="0.88"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="495" r_stop="549" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" 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="58579" g_stop="58518" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="550" r_stop="611" r_length="62" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E378710" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E378710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59544" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58518"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCT</genome_strand>
        <mrna_strand>TTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCGGGGCGGTGTATAAAGGAAGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCGGCAGAGAGCGGGTANAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E375604" ref_strand="+" ref_description="SGN-E375604 [TUS-35-C1]">
      <seq>gattgtactggccaagtttctggttttaatctcttataagttatcaagaagagaattcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggaggagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcattgttgtggccaggcttgtctgcagcagggtcatcttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59982" stop="58236"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59682" g_stop="59643" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59642" i_stop="59560" i_length="83">
            <donor d_prob="0.476" d_score="1.00"/>
            <acceptor a_prob="0.699" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59559" g_stop="59438" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="162" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="370" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="549" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="550" r_stop="604" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58579" g_stop="58536" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="605" r_stop="648" r_length="44" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E375604" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E375604" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59682" e_stop="59643"/>
          <exon e_start="59559" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58536"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGT</genome_strand>
        <mrna_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAG...................................................................................TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E255230" ref_strand="+" ref_description="SGN-E255230 [cLEG-31-L7]">
      <seq>gattgtactggccaagtttctggttttaatctcttataagttatcaagaagagaattcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggaggagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59982" stop="58395"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59682" g_stop="59643" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59642" i_stop="59560" i_length="83">
            <donor d_prob="0.476" d_score="1.00"/>
            <acceptor a_prob="0.699" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59559" g_stop="59438" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="162" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="370" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="549" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="550" r_stop="604" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58579" g_stop="58573" g_length="7"/>
          <reference_exon_boundary r_type="cDNA" r_start="605" r_stop="611" r_length="7" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E255230" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255230" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59682" e_stop="59643"/>
          <exon e_start="59559" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58573"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATT</genome_strand>
        <mrna_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAG...................................................................................TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E255555" ref_strand="+" ref_description="SGN-E255555 [cLEG-30-L4]">
      <seq>gattgtactggccaagtttctggttttaatctcttataagttatcaagaagagaattcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggaggagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagctagaaatttcatcgcaacaagttgttgcttatcaagccaacaaacaaaacacacacaaggagaataggaataatggttcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59982" stop="58395"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59682" g_stop="59643" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59642" i_stop="59560" i_length="83">
            <donor d_prob="0.476" d_score="1.00"/>
            <acceptor a_prob="0.699" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59559" g_stop="59438" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="162" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="370" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="59011" g_stop="58833" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="371" r_stop="549" r_length="179" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75">
            <donor d_prob="0.866" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="58757" g_stop="58703" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="550" r_stop="604" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123">
            <donor d_prob="0.990" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="58579" g_stop="58573" g_length="7"/>
          <reference_exon_boundary r_type="cDNA" r_start="605" r_stop="611" r_length="7" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E255555" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>611</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59682" e_stop="59643"/>
          <exon e_start="59559" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58833"/>
          <exon e_start="58757" e_stop="58703"/>
          <exon e_start="58579" e_stop="58573"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAAGTAACTTTTGTTTGGACATCTATACTCTTTGGTTAATACGTGACAGAAATGCTGATCTTACTGTTCTGTATTCAGGTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATGGTATAACTATAGCCTGCAAGTTTCAAATTTTCTGATGACTGGTTGTAATATATCCGAGACGGTGTCATCCAAATCATGTGTATTTTATATCTACATTAACAGAAATGTTGTTTTGGCGATCAGGTTCATT</genome_strand>
        <mrna_strand>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAG...................................................................................TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA...........................................................................GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG...........................................................................................................................GTTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E255376" ref_strand="+" ref_description="SGN-E255376 [cLEG-30-H9]">
      <seq>aagtttctggttttaatctcttattaggtgaattggttcttgtttgagttaaactttggactggcaattgatcataaattgtttgcttttggatcctttgccctttgtagttatcaagaagagaattcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggaggagcttgattgtccaatcaccaaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccagatgttgacaccttgagcgaaagcaaaataaatagtcaacttcctgaagtgaaatctttggacttaccagaacctgaggcttctgtaatcgcaagtggagttgtaacaacagaacaggacataaggacaaacagctcccaattcagtgctgaagctttgaagcagtttccagacatagctgtttctgctggagaagctgccaaatcaaaatcatttcatgatgcttccccgtgtgatacattcatcaacacagagcagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="59969" stop="58553"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="59669" g_stop="59438" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="232" r_length="232" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="59304" g_stop="59097" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="233" r_stop="440" r_length="208" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85">
            <donor d_prob="0.886" d_score="1.00"/>
            <acceptor a_prob="0.963" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59011" g_stop="58853" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="599" r_length="159" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E255376" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>599</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255376" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="59669" e_stop="59438"/>
          <exon e_start="59304" e_stop="59097"/>
          <exon e_start="59011" e_stop="58853"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAGGTCTGCTTGTTAGTTCTTCGTTTCTATGTTGGTCTCTTCCATAATTGGTCATTTGCCGAACTAATGTATTTCATAAATGGTGTAGTTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGC</genome_strand>
        <mrna_strand>AAGTTTCTGGTTTTAATCTCTTATTAGGTGAATTGGTTCTTGTTTGAGTTAAACTTTGGACTGGCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG.....................................................................................TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E554340" ref_strand="+" ref_description="SGN-E554340 [cTSC-3-P5]">
      <seq>aaacagagtaactgatcgttttcgtgtgaaatcttgagagaatcgggtaatcaaaaaccgaaagcttcggtttttccgtttgttaagcagaaatattctcagatagctaaatcgttactatttggattgtaagggaggaaatgaaataattgcgaagaaatcgaagaaagggggagaaagattgagtggtgctggtgaagtttagtccagtatgaacaacattgaaatgggttgtttaaagtctgatgataacgatgagattcattccaatgtttctgttcggaagcgatttaagtttcccaaaaagttttttgatgagtgtaatggagtagatcatgcttctgttcctcggaaagttcgttcagttatcaagaagagaattcgcaagctcatctctccacctttgccgatttccaaaaaggcgaatcgcatgtcagatggagctgaaacactaaggaaatatggcaacaagtctaagcttaatttgactcattgtggttcaagtcggtgtataaaggatgagcttgattgtccaatcacccaagatgaagaggaagtggctgaaaccttgtatgctttggctggtatgatcccatatgttgacaccttgagcgaaagcaaaataaatagtccaactttcctgaagtgaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="61710" stop="58844"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="61410" g_stop="61286" g_length="125"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="125" r_length="125" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="61285" i_stop="60258" i_length="1028">
            <donor d_prob="0.830" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="60257" g_stop="60076" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="126" r_stop="307" r_length="182" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="60075" i_stop="59996" i_length="80">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59995" g_stop="59938" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="365" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="59937" i_stop="59560" i_length="378">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.699" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="59559" g_stop="59438" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="366" r_stop="487" r_length="122" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.771" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="59304" g_stop="59144" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="488" r_stop="650" r_length="163" r_score="0.957"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E554340" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E554340" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="61410" e_stop="61286"/>
          <exon e_start="60257" e_stop="60076"/>
          <exon e_start="59995" e_stop="59938"/>
          <exon e_start="59559" e_stop="59438"/>
          <exon e_start="59304" e_stop="59144"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACAGAGTAACTGATCGTTTTCGTGTGAAATCTTGAGAGAATCGGGTAATCAAAAACCGAAAGCTTCGGTTTTTCCGTTTGTTAAGCAGAAATATTCTCAGATAGCTAAATCGTTACTATTTGGGTAAATCAAAAATTTATTCTTTTTGTTTGTTTGTTTGTTCTTGTTCAGTTATGAGTTGTTGCAACAGATTGTAAGCTGGATTAATTTTTTTTTTCATGATTCTCTGTTGTTTGTTCATGGAAATGACTGAGTTTTTTGTTTTCTGCATTTTGAATTTTTGCGTTTTCGATCTGAAAGAGTGATGAGATTATGCTTTTTCTGAAGAAAATGTACGTTTGATCTATATAATCTGATATGTTGATCTGTTTTAATGGGGTTTTGTTGATGAATAGAGATGGTACTGTAATTTCTCTACATGGGGTTGATTTTTTTTAGGTACTTTGCGTGTGTGTTGTCTTTCTCTTTCTCTCTCTCTCTCTTTCTTTTTGGGGGTTGATGAGTACGAGTGTGACAGACTCACAGTGAGAGAGCGGCTTTATTATGTGAAGAAGAACCCGATTCGTTGTACATAAAGGACCAAATTCAGTTTTCTTCTTCTTCTTCCCTTTTTAACCATTTTTAGAGTTTTTAAATGTTAGTACTGTAAAACCCAAAAGCCTTTAATGTTTCTGTATCGGGTTTTTAGATTCACTACCAAAAGTTCTGAATTTTGGAGGTTCTTGTTTGATGATTAGAGAATTGATTGTAGCTGGGTCTGGAAAAAAAATTGTTTTCAATTCAATTTTGTTGCAGTATTTTTTTTCCAGAAATGGACAAGAATCGGTAATGCTTAAGTGTGAAAGTGAATTTTATTGTTTCGTCTTTGTATTAAAATCAAACGGTTACTAGACAACAAGACCCATCAATGCGTCTATTGTCTGTTTCTGCAAATATATTCTTATTCTTATTCATCTATATGTGGATTTTGGTGTTTGCGAGGTTGAGAAACGCGTGTCGTCTTGTATTCCTCCTTTTCTCCTCTCTTTTTTTCTTTTTTGGTTATCTGTTACAGTTCTTTATCCTTCTTTTTGTTTTGATTTTTCTTGTGATTTCTGCTTTCCACACAAAATTCTCTGATAATATTTCTGGGTTTTGCTTTGAATGCTTAGATTGTAAGGGAGGAAATGAAATAATTGCGAAGAAATCGAAGAAAGGGGGAGAAAGATTGAGTGGTGCTGGTGAAGTTTAGTCCAGTATGAACAACATTGAAATGGGTTGTTTAAAGTCTGATGATAACGATGAGATTCATTCCAATGTTTCTGTTCGGAAGCGATTTAAGTTTCCCAAAAAGGTTTGATATTTTAGCTCAATTAAGTATATTGTAAATAGGTATTGGTCTGTTAAATTCATTAACCCCTTTTGGATTTGCAGTTTTTTGATGAGTGTAATGGAGTAGATCATGCTTCTGTTCCTCGGAAAGTTCGTTCAGGTTTGTATTTTTGTGAATCAAATTTGGAAATTACTGACTTGCTTATGTTTGTTATCTTATTTGGAATAGTTATGTGTTAGTTGGAGCCCAGTGCTTGGAAGTGGGTCACTTGTTGCTTTATTTTGTAAATTATAGTAAATTCCTTTTCACCTTTTCTTTCTTTTTAAGCATGAGAAGATTCTGTAAGTTTCTTCGTCTTATTTCGCTTTTTAAACCTTTGGAATCATTAAAAAGTACTTAATCTGCAATTTGGGTGATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTGGTTAGTGACTTGTAAATTTTGCAGCTTTTTCCTTTTAATAGTTCTTTTAGCTCTGTGGTTCCTCTGCCAAACAATTGAATGATATGCTGTTCAATTGAAAATTTTCATCTATGATAATGAGATTTAAATGCAGACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGT-CAAC-TTCCTGAAGTGAA</genome_strand>
        <mrna_strand>AAACAGAGTAACTGATCGTTTTCGTGTGAAATCTTGAGAGAATCGGGTAATCAAAAACCGAAAGCTTCGGTTTTTCCGTTTGTTAAGCAGAAATATTCTCAGATAGCTAAATCGTTACTATTTGG....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGTAAGGGAGGAAATGAAATAATTGCGAAGAAATCGAAGAAAGGGGGAGAAAGATTGAGTGGTGCTGGTGAAGTTTAGTCCAGTATGAACAACATTGAAATGGGTTGTTTAAAGTCTGATGATAACGATGAGATTCATTCCAATGTTTCTGTTCGGAAGCGATTTAAGTTTCCCAAAAAG................................................................................TTTTTTGATGAGTGTAATGGAGTAGATCATGCTTCTGTTCCTCGGAAAGTTCGTTCAG..........................................................................................................................................................................................................................................................................................................................................................................................TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG.....................................................................................................................................ACTCATTGTGGTTCAAGTCGGTGTATAAAGGATGAGCTTGATTGTCCAATCACCCAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCATATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCCAACTTTCCTGAAGTGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E709337" ref_strand="+" ref_description="SGN-E709337 [FA51CA02]">
      <seq>cgctactctgtcgccggttgccgccggttgtcgctgctcgcacgtcttctctttttcagctgatataagcccaaaattgtagcttatgtttggactaaactacaaattggctaaggtgctcccatcgacaatacactattggagagcgggtgcagaggtctgatatttctcgttcaagtgtcgactcaacgccgagagaagtcaccttttttggttgacaaaaacctcgaaactgccctttggctcatcttaatgtaactattattgggacagagaagataagaacattgtttttgtgaaatcacatgtcgacagcaacatacccaccaccgcctccgttttataggctgtacaaggactatcttcaagaccccaagtctgctccagaacctccccctccaattgagggcacctatgtcctctttggtaacaactaccctactgatgatgtactcccaaatttggaagagcacggtgtgcgtcacttatacccaaaagggcctaatgtccgacttcaagaaagaactaccagccacttaacagagaattgcacctacatatattggagcttgctgatgttcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="62361" stop="66439"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62659" g_stop="62717" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="62718" i_stop="64492" i_length="1775">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.954" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="64493" g_stop="64873" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="440" r_length="381" r_score="0.971"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="64874" i_stop="65474" i_length="601">
            <donor d_prob="0.939" d_score="0.96"/>
            <acceptor a_prob="0.991" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="65475" g_stop="65544" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="511" r_length="71" r_score="0.929"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523">
            <donor d_prob="0.462" d_score="0.90"/>
            <acceptor a_prob="0.956" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66068" g_stop="66139" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="512" r_stop="584" r_length="73" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E709337" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>582</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E709337" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62659" e_stop="62717"/>
          <exon e_start="64493" e_stop="64873"/>
          <exon e_start="65475" e_stop="65544"/>
          <exon e_start="66068" e_stop="66139"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCTACTCTGTCGCCGGTTGCCGCCGGTTGTCGCTGCTCGCACGTCTTCTCTTTTTCAGGTGAGTTCGATTATTGTGTGTTTTAATTCTTTCCAAAAGGAACAATTGAAGATGAAGAAAAATCTGTTGAATTTTTAACTTGAAAAGAACTGAACTATACACACCATAATTGAATCCATACTAGTTCGAAGCGTGATTTATGCTAGTTGAAGATGTGATTTGGATTATCATTATGATAATCATTTCTCTATATTTGAAGTTTTTGAACTCAATGTTCTTAGGTTAATTAGATATTTATGAGTCAATTGATTTTTGAATGAACCATTGCATAAAAATCAATTGTCGATGGTTACTTGTTAGGTTAAATAGGTTTCTGCTGCTGATTGTTTTTGTCGATCTTTAAGTTTTATATAGCTGTACTTTGAGATAGAAGGAAGGTGTTTGAGCTATGAGAAATTCATTCAGCTTGTAAGTTTTTGATTTGCTTCACCTGGAACTCAATTCGAAGCTAGCCTAACTTATTTTTCTGTTTATTTGTCCCTGGGCACATAAGTAGAAAGTTTGAGTATCTTCTCTTTACAAGAAAAACCTGAGTTATGTGGCACTTTAGACTACAAATTGTATTTTATACCTGACAGATACTATTGTAGGGCATATAATTTAGTTAGATTCGTTTTTGGTTCTGCTTTGGGCTGTATTTCCTTGAGACGAGGGTCGGGAACCACCTCTCTAACTCTGAGGTAGGGGTAAGGTTTGCGCGCTCTAAACCTTTGGGTATTTTGTTGTTGTAGATTTTATTGTAGTGCATATGGTATTACGTCAACATATTGAGTGTGTTCCCATAGTGGGGTCTGGGGAGGGCACTAACCTTCTTCTCCCACATAAAGTGCTACAACACACTGCTACTTACAAGACTTCTACCCTAGTCCTCGACCTCGAAACTTTCCTATATAGGGTCATATTCCTAGTAAGTTGAAGTTGTGTCATGTAGGGTTGAATCACCTTCCCCTTGTTCTTTTATGACCTATCCCTGCCTTTCTAACTCCTGTTCCGCCAATATTGGACTAGCACAGTTACCATTTAATCATTGAACAGTGAAATAGCCTTTCCATGAGAAATCTTTGAAACAGAAAAAATGAACTGCTTAAAATCATGGTGAGAATTTCGATGCACCAAAAGAAAAGTATCATGACAAAACCGAGCAGTCACTTAACACTAGAAAGGATCACAAACTACTCTAATGACAGTTACATATGTAACATGGGTATCTTCTCTGGTACTCGAATGAAATGAACATTCTTCTAGTTTTAAGTATACATTTAGTCTAAGTTGCTCTGATTCTGCACTTTTGGTGCCACACCCGTGTCGACACGACATGGGTGTGGGATCTTTGTCCGATTTGGTCAACTGATTTTGGGTACTTTGACCAAAATATATGGGGAAAGTCTTGACAGTTCTAAGATTTCTGTAATCAATACAAAAGCTAAGGTGAATTGAAGAAAATGGAATACCTTTTATATAGAAATTTCTTTGTCTTTCCTTTTCGTTTAATCTCCTTCCAAGATTCTCCTCAAGTTCTCCACATAATATAGGTTTTATAACTCTATTTTTAGGCGAATCCCTGCACCCGTATCCATACATAGATTCATATCCCCAAATCTTAAATTTAGATCTTGAAGGATCCAACCTCTGGATCCACACCCGTATCAGACACCCGCACCCGAGTTCGAGCAACTTAGCATTTAGTTCTCCTTTCTTCAGATTGTATATTATAAACTTGTTTTGATACTTTGACCCCTCTGACTTTTGAAATTGTTGCTTTTTATGTACTGCAGCTGATATAAGCCCAAAATTGTAGCTTATGTTTGGACTAAACTACAAATTGGTTAAGGTGCTCCCATCGACAATACACTATTGGAGAACGAGTGCAGAGGTCTGATATTTCTCGTTCAAGTGTCGACTCAACGCCGAGAGAAGTCGCCTTTTTTGGTTGAGAAAAACCTCGAAACTGCCCTTTGGCTCATCTTAATGTAACTATTATTGTGACAGAGAAGATAAGAACATTGTTTTTGTGAAATCAGATGTCGACAGCAACATACCCACCACCCCCTCCGTTTTATAGGCTGTACAAGGACTATCTTCAAGACCCCAAGTCTGCTCCGGAACCTCCCCCTCCAATTGAGGGCACCTATGTCCTCTTTGGTAGCAACTACACTGTAAAGTCTCTGACCCGTTCTTCTACTCCCTTTTGAAATCCACCCCCAAATGGGGAAAAGGGGTGAAAAAGTCATGATACCCAATTGCTTACTTGTGCTTAATGTGGATGTATGAATGTATAAGGTGTCTTTGAGGCCCATTCAAGTTACTGGGTAGCTCTTTACCTCGAAAGATTTGCTTTTACTTTAAAGATTGAACCATGTTCTCAGTTTCTTCACTTTCATATACTTTATATTGCTTTTGGGGTAAAGGTATGGATTTAATTCAATGCGCGCTTAAAAAAATACAAAAGATTAGAGGGGGAAAATGTCTGATGCTAAGGTGAGGTTCAGTGAGATATTCAACAATGATTTAGATTTTATCTATTCTGAAATATGAATGAGGTTTCCATTAACATTCTCACCTTTATCTTATGTCATCTTGAGCTGCAACGCATCAAGAATCTTTATTCTGGTCACTCCTCTCAGTCCTCTGTGTTCTTGTCTTTTGTGAATTTTGTTTGTCAGTTGTGTTGCTGAAATTAAGTTGTCGTTGTGGTTTTTATTAGATAGCTATGTGCAAGTTTGCTCATTATTTATTTTGGCATTACCGTTTGCGCAGACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGT-TGGTAATGTTTGCAGCTATTCTCAAAAAGCCGTATTTGTTCCTACTGTGATATGTAACATGCATATCTTTTTTAAACATTTATGGTTAAAAGAATTTAAGTATGTGGATACACACATTTGTACCTTATATATCATCCTGCATTTTCGATATGAATCTGCATGGAACATGACACTCGTTTTTGTTTCCTTATCGTAAGTTCCAAGTAAATATCCTCTACAAGGTCAATCGATATGTCTAATCATTTCTGTTCTCTTTCTCTAAGCCAGTGACCAGAATAAATAAAAGGGAAATAGATATAAAGTTTGAGCCCTTTAGGTTATTCAAAGTCTTAGACAAAAGATTGCAAATCAAGTATCCTATGCATTGCAAAAGTTAATTGCAGAATCAATTCCATAGTTGAAACGATGATGTCCCCTTTATTGGGTGCTGCTGCATATGGGATGCTTCCAGAGATAAATTTAGGTGCTATTTTGTTGCTTCTCAGAAAAAATTATTCATTCTTATTCTGCTGATTCATGTTACAGATTTCAAGAAAGAACTAAGAG-CACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTG</genome_strand>
        <mrna_strand>CGCTACTCTGTCGCCGGTTGCCGCCGGTTGTCGCTGCTCGCACGTCTTCTCTTTTTCAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTGATATAAGCCCAAAATTGTAGCTTATGTTTGGACTAAACTACAAATTGGCTAAGGTGCTCCCATCGACAATACACTATTGGAGAGCGGGTGCAGAGGTCTGATATTTCTCGTTCAAGTGTCGACTCAACGCCGAGAGAAGTCACCTTTTTTGGTTGACAAAAACCTCGAAACTGCCCTTTGGCTCATCTTAATGTAACTATTATTGGGACAGAGAAGATAAGAACATTGTTTTTGTGAAATCACATGTCGACAGCAACATACCCACCACCGCCTCCGTTTTATAGGCTGTACAAGGACTATCTTCAAGACCCCAAGTCTGCTCCAGAACCTCCCCCTCCAATTGAGGGCACCTATGTCCTCTTTGGTAACAACTACCCT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTGATGATGTACTCCCAAATTTGGAAGAGCACGGTGTGCGTCACTTATACCCAAAAGGGCCTAATGTCCG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTTCAAGAAAGAACTACCAGCCACTTAACAGAGAATTGCACCTACATATATTGGAGCTTGCTGATGTTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E275862" ref_strand="+" ref_description="SGN-E275862 [cLEN-18-N10]">
      <seq>actgccttttggctcattttaatgtaactattattgtgacagagaagataagaacattgtttttgtgaaatcacatgtcgacagcaacatacccaccaccccctccgttttataggctgtacaaggactatcttcaagaccccaagtctgctccggaacctccccctccaattgagggcacctatgtcctctttggtagcaactacactactgatgatgtactcccaaatttggaagagcagggtgtgcgtcagttatacccaaaagggcctaatgttgatttcaagaaagaactacgagcacttaacagagaattgcagctacatatattggagcttgctgatgttcttgtagagcgcccttcgcaatatgccaggagagtggaagagatatctctgatattcaagaacttgcaccacctactcaattctctgcgtcctcaccaggctcgagccacacttatccacattctagaacttcagatacaacgacgtaaacaagcaatagaggatatcaagcggagaagggaagaagctcagaagcttctaaaggaggcacttggtacccttgagggacagtagaatgctctttagactttacaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="64365" stop="67161"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="64665" g_stop="64873" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="209" r_length="209" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="64874" i_stop="65474" i_length="601">
            <donor d_prob="0.939" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="65475" g_stop="65544" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="279" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523">
            <donor d_prob="0.462" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66068" g_stop="66234" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="280" r_stop="446" r_length="167" r_score="0.994"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66235" i_stop="66341" i_length="107">
            <donor d_prob="0.585" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66342" g_stop="66415" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="447" r_stop="520" r_length="74" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="66416" i_stop="66778" i_length="363">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="66779" g_stop="66861" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="521" r_stop="603" r_length="83" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E275862" ref_strand="+">
        <total_alignment_score>0.993</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E275862" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="64665" e_stop="64873"/>
          <exon e_start="65475" e_stop="65544"/>
          <exon e_start="66068" e_stop="66234"/>
          <exon e_start="66342" e_stop="66415"/>
          <exon e_start="66779" e_stop="66861"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGCCCTTTGGCTCATCTTAATGTAACTATTATTGTGACAGAGAAGATAAGAACATTGTTTTTGTGAAATCAGATGTCGACAGCAACATACCCACCACCCCCTCCGTTTTATAGGCTGTACAAGGACTATCTTCAAGACCCCAAGTCTGCTCCGGAACCTCCCCCTCCAATTGAGGGCACCTATGTCCTCTTTGGTAGCAACTACACTGTAAAGTCTCTGACCCGTTCTTCTACTCCCTTTTGAAATCCACCCCCAAATGGGGAAAAGGGGTGAAAAAGTCATGATACCCAATTGCTTACTTGTGCTTAATGTGGATGTATGAATGTATAAGGTGTCTTTGAGGCCCATTCAAGTTACTGGGTAGCTCTTTACCTCGAAAGATTTGCTTTTACTTTAAAGATTGAACCATGTTCTCAGTTTCTTCACTTTCATATACTTTATATTGCTTTTGGGGTAAAGGTATGGATTTAATTCAATGCGCGCTTAAAAAAATACAAAAGATTAGAGGGGGAAAATGTCTGATGCTAAGGTGAGGTTCAGTGAGATATTCAACAATGATTTAGATTTTATCTATTCTGAAATATGAATGAGGTTTCCATTAACATTCTCACCTTTATCTTATGTCATCTTGAGCTGCAACGCATCAAGAATCTTTATTCTGGTCACTCCTCTCAGTCCTCTGTGTTCTTGTCTTTTGTGAATTTTGTTTGTCAGTTGTGTTGCTGAAATTAAGTTGTCGTTGTGGTTTTTATTAGATAGCTATGTGCAAGTTTGCTCATTATTTATTTTGGCATTACCGTTTGCGCAGACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTGGTAATGTTTGCAGCTATTCTCAAAAAGCCGTATTTGTTCCTACTGTGATATGTAACATGCATATCTTTTTTAAACATTTATGGTTAAAAGAATTTAAGTATGTGGATACACACATTTGTACCTTATATATCATCCTGCATTTTCGATATGAATCTGCATGGAACATGACACTCGTTTTTGTTTCCTTATCGTAAGTTCCAAGTAAATATCCTCTACAAGGTCAATCGATATGTCTAATCATTTCTGTTCTCTTTCTCTAAGCCAGTGACCAGAATAAATAAAAGGGAAATAGATATAAAGTTTGAGCCCTTTAGGTTATTCAAAGTCTTAGACAAAAGATTGCAAATCAAGTATCCTATGCATTGCAAAAGTTAATTGCAGAATCAATTCCATAGTTGAAACGATGATGTCCCCTTTATTGGGTGCTGCTGCATATGGGATGCTTCCAGAGATAAATTTAGGTGCTATTTTGTTGCTTCTCAGAAAAAATTATTCATTCTTATTCTGCTGATTCATGTTACAGATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAGGTGATCAATTGGTGAAATCTAAGTGTCTAAATATTTCTGGGTTTTAGCATGGCTATAGAAGATAGATGATCTCAATAATCATTTACCTTTGTTTCTTTCTTTTACAGGCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCGGTATGATGTTGTTTGTATGTTCTTTTTATCATATATATTTAGCTTCTTCCTTCATTAGATTTAGATGAAAAATCGTGAGTTTTCTAGAAGAGTTCAAGTGTGCCTCATCAAACAGTTGCAAGTGAAAGAATTCAGTTTCCCTTTAAGCTGCTTCAGTCACTTTCAGCTACACAGATTATATGTAATTACTATATCAAACTACCTCTCAAAATGAAAAGAGAGATGTATTTACCGTTAACTCTAATAATGTGCATAAATTCACAAGTTGTTGGAGTTGAGGCAGACTGTTTAATTCTCTCTTTATCTTTTTATCCTGGTTACTATGATTTTAGTCATGATTTTGGTTTCTATTTGCTTGTATAGGAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACA</genome_strand>
        <mrna_strand>ACTGCCTTTTGGCTCATTTTAATGTAACTATTATTGTGACAGAGAAGATAAGAACATTGTTTTTGTGAAATCACATGTCGACAGCAACATACCCACCACCCCCTCCGTTTTATAGGCTGTACAAGGACTATCTTCAAGACCCCAAGTCTGCTCCGGAACCTCCCCCTCCAATTGAGGGCACCTATGTCCTCTTTGGTAGCAACTACACT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTCAAGAAAGAACTACGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAG...........................................................................................................GCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCG...........................................................................................................................................................................................................................................................................................................................................................................GAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E541021" ref_strand="+" ref_description="SGN-E541021 [TUS-61-J15](-)">
      <seq>ttggtagcaactacactactgatgatgtactcccaaatttggaagagcagggtgtgcgtcagttatacccaaaagggcctaatgttgatttcaagaaagaactaagagcacttaacagagaattgcagctacatatattggagcttgctgatgttcttgtagagcgcccttcgcaatatgccaggagagtggaagagatatctctgatattcaagaacttgcaccacctactcaattctctgcgtcctcaccaggctcgagccacacttatccacattctagaacttcagatacaacgacgtaaacaagcaatagaggatatcaagcggagaagggaagaagctcagaagcttctaaaggaggcacttggtacccttgagggacagtagaatgctctttagactttacacacacagctggcagaattagtgtctagaatgctttgaaattacagtatagaaatcattcagtcctaatgtgaaattttctttattcacttgcctgaattttatacagtgacaatgcttttatgtggcaagtgtcacaatccagtgccaaaaattcgacgtttcagtcatcgaggcaatacagagtttcgattaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="65175" stop="67355"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65475" g_stop="65544" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="87" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523">
            <donor d_prob="0.462" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66068" g_stop="66234" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="254" r_length="167" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="66235" i_stop="66341" i_length="107">
            <donor d_prob="0.585" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66342" g_stop="66415" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="328" r_length="74" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66416" i_stop="66778" i_length="363">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66779" g_stop="67055" g_length="277"/>
          <reference_exon_boundary r_type="cDNA" r_start="329" r_stop="605" r_length="277" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E541021" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E541021" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65475" e_stop="65544"/>
          <exon e_start="66068" e_stop="66234"/>
          <exon e_start="66342" e_stop="66415"/>
          <exon e_start="66779" e_stop="67055"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTGGTAATGTTTGCAGCTATTCTCAAAAAGCCGTATTTGTTCCTACTGTGATATGTAACATGCATATCTTTTTTAAACATTTATGGTTAAAAGAATTTAAGTATGTGGATACACACATTTGTACCTTATATATCATCCTGCATTTTCGATATGAATCTGCATGGAACATGACACTCGTTTTTGTTTCCTTATCGTAAGTTCCAAGTAAATATCCTCTACAAGGTCAATCGATATGTCTAATCATTTCTGTTCTCTTTCTCTAAGCCAGTGACCAGAATAAATAAAAGGGAAATAGATATAAAGTTTGAGCCCTTTAGGTTATTCAAAGTCTTAGACAAAAGATTGCAAATCAAGTATCCTATGCATTGCAAAAGTTAATTGCAGAATCAATTCCATAGTTGAAACGATGATGTCCCCTTTATTGGGTGCTGCTGCATATGGGATGCTTCCAGAGATAAATTTAGGTGCTATTTTGTTGCTTCTCAGAAAAAATTATTCATTCTTATTCTGCTGATTCATGTTACAGATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAGGTGATCAATTGGTGAAATCTAAGTGTCTAAATATTTCTGGGTTTTAGCATGGCTATAGAAGATAGATGATCTCAATAATCATTTACCTTTGTTTCTTTCTTTTACAGGCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCGGTATGATGTTGTTTGTATGTTCTTTTTATCATATATATTTAGCTTCTTCCTTCATTAGATTTAGATGAAAAATCGTGAGTTTTCTAGAAGAGTTCAAGTGTGCCTCATCAAACAGTTGCAAGTGAAAGAATTCAGTTTCCCTTTAAGCTGCTTCAGTCACTTTCAGCTACACAGATTATATGTAATTACTATATCAAACTACCTCTCAAAATGAAAAGAGAGATGTATTTACCGTTAACTCTAATAATGTGCATAAATTCACAAGTTGTTGGAGTTGAGGCAGACTGTTTAATTCTCTCTTTATCTTTTTATCCTGGTTACTATGATTTTAGTCATGATTTTGGTTTCTATTTGCTTGTATAGGAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCGAGGCAATACAGAGTTTCGATTAAGA</genome_strand>
        <mrna_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAG...........................................................................................................GCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCG...........................................................................................................................................................................................................................................................................................................................................................................GAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCGAGGCAATACAGAGTTTCGATTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E541023" ref_strand="+" ref_description="SGN-E541023 [TUS-61-J15]">
      <seq>ttggtagcaactacactactgatgatgtactcccaaatttggaagagcagggtgtgcgtcagttatacccaaaagggcctaatgttgatttcaagaaagaactaagagcacttaacagagaattgcagctacatatattggagcttgctgatgttcttgtagagcgcccttcgcaatatgccaggagagtggaagagatatctctgatattcaagaacttgcaccacctactcaattctctgcgtcctcaccaggctcgagccacacttatccacattctagaacttcagatacaacgacgtaaacaagcaatagaggatatcaagcggagaagggaagaagctcagaagcttctaaaggaggcacttggtacccttgagggacagtagaatgctctttagactttacacacacagctggcagaattagtgtctagaatgctttgaaattacagtatagaaatcattcagtcctaatgtgaaattttctttattcacttgcctgaattttatacagtgacaatgcttttatgtggcaagtgtcacaatccagtgccaaaaattcgacgtttcagtcatcgaggcaatacagagtttcgattaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="65175" stop="67355"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65475" g_stop="65544" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="87" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523">
            <donor d_prob="0.462" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66068" g_stop="66234" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="254" r_length="167" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="66235" i_stop="66341" i_length="107">
            <donor d_prob="0.585" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66342" g_stop="66415" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="328" r_length="74" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66416" i_stop="66778" i_length="363">
            <donor d_prob="0.969" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66779" g_stop="67055" g_length="277"/>
          <reference_exon_boundary r_type="cDNA" r_start="329" r_stop="605" r_length="277" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E541023" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E541023" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65475" e_stop="65544"/>
          <exon e_start="66068" e_stop="66234"/>
          <exon e_start="66342" e_stop="66415"/>
          <exon e_start="66779" e_stop="67055"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTGGTAATGTTTGCAGCTATTCTCAAAAAGCCGTATTTGTTCCTACTGTGATATGTAACATGCATATCTTTTTTAAACATTTATGGTTAAAAGAATTTAAGTATGTGGATACACACATTTGTACCTTATATATCATCCTGCATTTTCGATATGAATCTGCATGGAACATGACACTCGTTTTTGTTTCCTTATCGTAAGTTCCAAGTAAATATCCTCTACAAGGTCAATCGATATGTCTAATCATTTCTGTTCTCTTTCTCTAAGCCAGTGACCAGAATAAATAAAAGGGAAATAGATATAAAGTTTGAGCCCTTTAGGTTATTCAAAGTCTTAGACAAAAGATTGCAAATCAAGTATCCTATGCATTGCAAAAGTTAATTGCAGAATCAATTCCATAGTTGAAACGATGATGTCCCCTTTATTGGGTGCTGCTGCATATGGGATGCTTCCAGAGATAAATTTAGGTGCTATTTTGTTGCTTCTCAGAAAAAATTATTCATTCTTATTCTGCTGATTCATGTTACAGATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAGGTGATCAATTGGTGAAATCTAAGTGTCTAAATATTTCTGGGTTTTAGCATGGCTATAGAAGATAGATGATCTCAATAATCATTTACCTTTGTTTCTTTCTTTTACAGGCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCGGTATGATGTTGTTTGTATGTTCTTTTTATCATATATATTTAGCTTCTTCCTTCATTAGATTTAGATGAAAAATCGTGAGTTTTCTAGAAGAGTTCAAGTGTGCCTCATCAAACAGTTGCAAGTGAAAGAATTCAGTTTCCCTTTAAGCTGCTTCAGTCACTTTCAGCTACACAGATTATATGTAATTACTATATCAAACTACCTCTCAAAATGAAAAGAGAGATGTATTTACCGTTAACTCTAATAATGTGCATAAATTCACAAGTTGTTGGAGTTGAGGCAGACTGTTTAATTCTCTCTTTATCTTTTTATCCTGGTTACTATGATTTTAGTCATGATTTTGGTTTCTATTTGCTTGTATAGGAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCGAGGCAATACAGAGTTTCGATTAAGA</genome_strand>
        <mrna_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAG...........................................................................................................GCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCG...........................................................................................................................................................................................................................................................................................................................................................................GAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCGAGGCAATACAGAGTTTCGATTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293529" ref_strand="+" ref_description="SGN-E293529 [cLET-15-P16]">
      <seq>tggtagcaactacactactgatgatgtactcccaaatttggaagagcagggtgtgcgtcagttatacccaaaagggcctaatgttgatttcaagaaagaactaagagcacttaacagagaattgcagctacatatattggagcttgctgatgttattgtagagcgcccttcgcaatatgccaggagagtggaagagatatctctgatattcaagaacttgcaccacctactgaaatctctgcgtcctcaccaggctcgagccacacttatccacattctagaactttatatacaacgacgtaaacaatcaatacaggatatcaagcggtgaagggaagaagctcagaagcttctaacggaggcacttggtacccttgagggacagtagaatgctctttagactttacacacacagctggcataattagtgtctagaatgctttgaaattacagtatataaatcattcaggcctaatgtgaaattatctttattcacttgcctgaattttatacagtgacaatgcttttatgtggcaagtgttacaatccagtgccaaaaattcgacgtttcagtcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="65175" stop="67330"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65475" g_stop="65544" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="17" r_stop="86" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523">
            <donor d_prob="0.462" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="66068" g_stop="66234" g_length="167"/>
          <reference_exon_boundary r_type="cDNA" r_start="87" r_stop="253" r_length="167" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="66235" i_stop="66341" i_length="107">
            <donor d_prob="0.585" d_score="0.96"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="66342" g_stop="66415" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="327" r_length="74" r_score="0.946"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="66416" i_stop="66778" i_length="363">
            <donor d_prob="0.969" d_score="0.92"/>
            <acceptor a_prob="0.997" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="66779" g_stop="67030" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="328" r_stop="579" r_length="252" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E293529" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>563</cumulative_length_of_scored_exons>
        <coverage percentage="0.972" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E293529" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65475" e_stop="65544"/>
          <exon e_start="66068" e_stop="66234"/>
          <exon e_start="66342" e_stop="66415"/>
          <exon e_start="66779" e_stop="67030"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTGGTAATGTTTGCAGCTATTCTCAAAAAGCCGTATTTGTTCCTACTGTGATATGTAACATGCATATCTTTTTTAAACATTTATGGTTAAAAGAATTTAAGTATGTGGATACACACATTTGTACCTTATATATCATCCTGCATTTTCGATATGAATCTGCATGGAACATGACACTCGTTTTTGTTTCCTTATCGTAAGTTCCAAGTAAATATCCTCTACAAGGTCAATCGATATGTCTAATCATTTCTGTTCTCTTTCTCTAAGCCAGTGACCAGAATAAATAAAAGGGAAATAGATATAAAGTTTGAGCCCTTTAGGTTATTCAAAGTCTTAGACAAAAGATTGCAAATCAAGTATCCTATGCATTGCAAAAGTTAATTGCAGAATCAATTCCATAGTTGAAACGATGATGTCCCCTTTATTGGGTGCTGCTGCATATGGGATGCTTCCAGAGATAAATTTAGGTGCTATTTTGTTGCTTCTCAGAAAAAATTATTCATTCTTATTCTGCTGATTCATGTTACAGATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAGGTGATCAATTGGTGAAATCTAAGTGTCTAAATATTTCTGGGTTTTAGCATGGCTATAGAAGATAGATGATCTCAATAATCATTTACCTTTGTTTCTTTCTTTTACAGGCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCGGTATGATGTTGTTTGTATGTTCTTTTTATCATATATATTTAGCTTCTTCCTTCATTAGATTTAGATGAAAAATCGTGAGTTTTCTAGAAGAGTTCAAGTGTGCCTCATCAAACAGTTGCAAGTGAAAGAATTCAGTTTCCCTTTAAGCTGCTTCAGTCACTTTCAGCTACACAGATTATATGTAATTACTATATCAAACTACCTCTCAAAATGAAAAGAGAGATGTATTTACCGTTAACTCTAATAATGTGCATAAATTCACAAGTTGTTGGAGTTGAGGCAGACTGTTTAATTCTCTCTTTATCTTTTTATCCTGGTTACTATGATTTTAGTCATGATTTTGGTTTCTATTTGCTTGTATAGGAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCG</genome_strand>
        <mrna_strand>ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTATTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTGAAATCTCTGCGTCCTCACCAG...........................................................................................................GCTCGAGCCACACTTATCCACATTCTAGAACTTTATATACAACGACGTAAACAATCAATACAGGATATCAAGCG...........................................................................................................................................................................................................................................................................................................................................................................GTGAAGGGAAGAAGCTCAGAAGCTTCTAACGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCATAATTAGTGTCTAGAATGCTTTGAAATTACAGTATATAAATCATTCAGGCCTAATGTGAAATTATCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTTACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E745830" ref_strand="+" ref_description="SGN-E745830 [GI|47105040]">
      <seq>ggatatttcatggttggtgtcttcctcggaaaccttagatctcactgaagttcgccgtagccgccgccgccgccgccgatactttgagatctttggattcgatttcttattgtctaggacttttggaagtattggaagatgcctagccctgtggatgtgtctcaaaatgggaatgcaagacacgcggaagctgctccatccttgtttgaaatcgaggaagatttggctagattgctggaaaggccaagacaagttaatattgaaaggaagaggtcgttcgatgaaagatctttcagcgaaatgtcaatgactcattcaccgccacgtcaggtatacaaaaattcggagaactcttctcgtgtttttgataatatggttggagtgtattcaccaggaaggtggtccggcatacacacacccagatcaaccttcggatatgagccgcatcctataatcggcgaagcatgggaagctttgaggcgttctattgttaacttccgagatcaacctgtgggaactattgctgctatagataattctgctgaggaacttaactatgatcaggtttttgtcagagattttgtccccagcgctttggcattcttgatgaatggtgaacctgatatagtaaagaattttcttttgaaaaccttgcgcctccaatctcgggagaagaagatagaccagttcaagttgggggatggagttatgcctgcaagttttaaagtgtctcatgatcctgttaggaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgttgattcagggttctggtggattatactacttcgtgcatacacaaagtctacaggggacacttctttggctgagatgccagaatgccaaaggggtataaggctgattcttgaattatgtctctctgaaggttttgatacattcccaaccctgctgtgcgctgatggatgctctatgattgatcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatgctttaagctttcacatgagaagttactattggctcgacataaaacaactgaatgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcaagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattatgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggtccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatatcacttgaagaagataaacagatgaagcctaccatgaaaagatctgcttcttggacttgttaatatccttgtacacaaattttctttcgaatgccatgctttttttctctctcttttttgcaattcgtaaacactctcttttagtttgtcgctaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="72453" stop="67318"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="72154" g_stop="72067" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="88" r_length="88" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.522" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="71414" g_stop="70939" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="564" r_length="476" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.980" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="70216" g_stop="69785" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="565" r_stop="996" r_length="432" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.661" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="68950" g_stop="68392" g_length="559"/>
          <reference_exon_boundary r_type="cDNA" r_start="997" r_stop="1555" r_length="559" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="68006" g_stop="67617" g_length="390"/>
          <reference_exon_boundary r_type="cDNA" r_start="1556" r_stop="1946" r_length="391" r_score="0.985"/>
        </exon>
        <intron i_serial="5">
          <gDNA_intron_boundary i_start="67616" i_stop="67420" i_length="197">
            <donor d_prob="0.000" d_score="0.92"/>
            <acceptor a_prob="0.814" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="6">
          <gDNA_exon_boundary g_start="67419" g_stop="67410" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1947" r_stop="1956" r_length="10" r_score="0.700"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E745830" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>1955</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E745830" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="72154" e_stop="72067"/>
          <exon e_start="71414" e_stop="70939"/>
          <exon e_start="70216" e_stop="69785"/>
          <exon e_start="68950" e_stop="68392"/>
          <exon e_start="68006" e_stop="67617"/>
          <exon e_start="67419" e_stop="67410"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGATAGTTCATGGTTGGTGTCTTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAGGTTGTTATTACCAGCTCCTAGGTTATTTATTTTGTGTTTTATCTATGTTTCTTAATTTTTTCATTTTTCTGTTTGTTTCGATGATATTAAGGTTTTTCTGCATTTGAGATTTTTCATTTTGTGCTGGTTTCAGTATTTGCTGGATTGATCAAAGTATGAATTAAAAAGAAAGAAGTAAATTGATAAAGTAAAAGAAGATCTAACAGTAGTTTGACTTTGATTGTTTAATTAAGTTAATGATTATGATTAATTAATTAAAATTGTGTGTAAGAACTTGCTCTAATTTTGCTCAAGTTGAATTAAACCAAACTTATAGTGAATAAATATTGCTTGTAAATGAAAAAAATGTTGATTTTCTGATCTGGTGTATATTTCAATTTAATGTATTCCAAGTATAAGAGGCATTAATTGCACTCTTTATTACAAGTTGATTGTATTCTTTATTATGTAAGTTCTTGTTTGATGTAGCTCGGACTCTCCAAAAATGTTGCTGCAGCCCATTGGATCCTCCAAAAGAGGAACCTTTCGGAGGATCCGACACACACTTGTTTGATGTTTTTGGAGAGTCTGAGCTATATAGCTTTGTGTTTACTAAGCTTCTGTTACGGGGGCGAATTCTTAAAAGTTTTCTTATTTCATTGGTGATATGCAGATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAGGTAAATGCTTATTGTTCTAGTTCTTAGATGGATACAAGTTTGTCTTTATGTATTTTGTTGTGATTTAATATCCCGTGAAGCAGGTCGATTATGTGCTTCAATGGAACTTGTTTTGACGAGTGTCCTCTGATAAGTTGTACTAGATGTTTCTTTACGTAATAAATAGAAAATGGTGAATTCCTATGTCCACACTATAGTTATCAGTGCAACTGATTGGTTTGCGGTTGACTGATAAGATGAAGAGGGGGTATAGTTTGCAGGCCCAGCTATTTCAATGAATATGAGCTAAGCTTGACCGACTGAATTGTTCAAATAGTTTACATAAAAACTTATGTAGAACCAGTGTTGTCAAAGGCGCATTTAAGCCATGAAGCGGGACTCGAAATGTGTCTGAGCACTTTTTCTCGCTTATTGTGCATTCAGCGTCGTTAGCAAGGTTCTCTAAGGCATACTTATCATTGTGAATTAACCTCTTATGACGAGGCGGCACTAAACAATTGATATTTCACTTATTTGTTATTCATGCTTATTTGCGCTTAAAACCCCAATGAACCTTTGAGCGTTTTTGCGTCTGATCTAGAACCAGATTCTAGATATTCTCCAGAGGTAAAACCAGCTTACTGATGGGCCCAGCTTTCCGAAATCCTTTCACAGTCGTCTTTCTCTATGTACATGACAACCATTCTACTTGCAATTTGCAGTTCTGACTTAAAATTTGGCAGGTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATGGTCAGTCTGATGTACTACTATCCGCTCTTTATCGGTTTTTTAAACTAGATCTGACTTATGCTCATGCCTTGTTTTCTGTTTATTACATGCTTGATTTTCTACTTAATATTACATGATGACAGTGATGACAAGATATGAGATAGCTATCAACTGTTACTTCTAGAATAGTATAATTGACCAAATGCATATTTATAATCTGTCAAGATTTGGTTAGCCTACATACTTATTACGTGCTTGATTTTCTATTTCTCGTACATAATGACAGTGATTCTGATTCTGACTTAGGTAAGTTAAGCTTCAAATAGGAGTTCTGCTGAGATTTCACATCATTTGCTTGAAGTTAAGAAATAGGCAGTTGAGCTTTGTCTTGCTTTTTGGCGGGATTAGGCTTGGTGGGAGTCTGGTAGCACTGTGTCTGTCTTAGTATTAGTCGTATACACGTACTTTCTTGCGTTTGACCATCTGTTTTCTATTGTGTTTCAGTTACCGCTTGATTTCGATGTGCTATGTAGTGCTTTCCTTATTAATTGACGTGTTTTCTTCACTGCTGTATCTCCTTTTTCATAACTTCTTTGATGTGCTGCACTTTGAGCTGAGGGTCTTTCGGAAACAACCTCTCTACCTCCACGATGTAGGGGTAAGGTCTGTGTATACACTACCCTCCTGAGACTCCACTTGTGGGATTACACTGGACCAATAAGAAGACTTGTACTCTTTTCTCATATTCTCAATAAATTTGTGGGCATATTAAAATTCTCAATTATTGCAGTTCAACTTCCTTTAAAATATCCACTACTCACATGTCATAAGCACTTTGTTTCATATTGTTCCCAGGGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTC-TTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGATTGTACACTTCACTCCTATTTTTTTCCAGTTAATCTGGTTTTCGTCTAAGAGTGTTCGTCGAATGCCAATAGATGTGTGTTGTTAGCTGATCTACTGGGTTATGTCACAGTTGCTTCTTGAATGTAGATTCTTTAGATTGTACAACCATAGCATCTTTCATGTCACAGCAACAAAACA</genome_strand>
        <mrna_strand>GGATATTTCATGGTTGGTGTCTTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTATGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTCTCTCTCTTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCTAAAAA.....................................................................................................................................................................................................AAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E356850" ref_strand="-" ref_description="SGN-E356850 [cTOS-22-K3]">
      <seq>gaaagtgaaattactatatagttgaagggaaaataaaatatttaaggccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggtccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatatcacttgaagaagataaacagatgaagcctaccatgaaaagatctgcttcttggacttgttaatatccttgtacacaaattttctttcgaatgccatgctttttttttctctctttttgcaattcgtaaacactctcttttagtttgtcgcaaaaatgttgaattttttatgaattggctacgagattgtacacttcactcctatttttttccagttaatctggttttcgtctaagagtgttcgtcgaatgccaatagatgtgtgttgttagctgaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="68804" stop="67198"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68505" g_stop="68392" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67492" g_length="515"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="671" r_length="515" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E356850" ref_strand="-">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>629</cumulative_length_of_scored_exons>
        <coverage percentage="0.937" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E356850" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="68505" e_stop="68392"/>
          <exon e_start="68006" e_stop="67492"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGATTGTACACTTCACTCCTATTTTTTTCCAGTTAATCTGGTTTTCGTCTAAGAGTGTTCGTCGAATGCCAATAGATGTGTGTTGTTAGCTGATCTACT</genome_strand>
        <mrna_strand>TAAGGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGATTGTACACTTCACTCCTATTTTTTTCCAGTTAATCTGGTTTTCGTCTAAGAGTGTTCGTCGAATGCCAATAGATGTGTGTTGTTAGCTGAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E307559" ref_strand="+" ref_description="SGN-E307559 [cLEY-24-H5]">
      <seq>cagctatcaagactggtcgaccccgaatagcacgacgggccagggaactacctgaatcgcgtttgctaaaagatagctggccggagttttacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggcccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatatcacttgaagaagataaacagatgaagcctaccatgaaaagatctgcttcttggacttgttaatatccttgtacacaaattttctttcggatgccatgctttatttttctctctttttgcaagtggtaaacactctctttgagtttgtcgcaaaaatgttgaattttttatgaattggctacgagagggtacacttcactcctatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="68282" stop="67268"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67982" g_stop="67568" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="415" r_length="415" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E307559" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>415</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E307559" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67982" e_stop="67568"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGATTGTACACTTCACTCCTATT</genome_strand>
        <mrna_strand>CAGCTATCAAGACTGGTCGACCCCGAATAGCACGACGGGCCAGGGAACTACCTGAATCGCGTTTGCTAAAAGATAGCTGGCCGGAGTTTTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGCCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGGATGCCATGCTTTATTTTTCTCTCTTTTTGCAAGTGGTAAACACTCTCTTTGAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGAGGGTACACTTCACTCCTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E210023" ref_strand="+" ref_description="SGN-E210023 [cLEC-40-L20]">
      <seq>gtgtacaatctcgtagccaattcataaaaaattcaacatttttgcgacaaactaaaagagagtgtttacgaattgcaaaaagagagaaaaaaaaagcatggcattcgaaagaaaatttgtgtacaaggatattaacaagtccaagaagcagatcttttcatggtaggcttcatctgtttatcttcttcaagtgatatcatacccaaatgagatggatcttccagcatcattctagctaccaagtaaccagcaatggaccatgtctggaacttacgcgcctgctttccaataaatcgaccaagctttccgtcgtaatactctggccagctatcttttagtaaacgcgattcagctagttcaatggcccgtcgtgctatttggggtcgaccagtcttgatagctgctgcagtaaggagccacagaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="67280" stop="68304"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="67580" g_stop="68004" g_length="425"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="425" r_length="425" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E210023" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E210023" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="67580" e_stop="68004"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGTACAATCTCGTAGCCAATTCATAAAAAATTCAACATTTTTGCGACAAACTAAAAGAGAGTGTTTACGAATTGCAAAAAGAGAGAAAAAAAAAGCATGGCATTCGAAAGAAAATTTGTGTACAAGGATATTAACAAGTCCAAGAAGCAGATCTTTTCATGGTAGGCTTCATCTGTTTATCTTCTTCAAGTGATATCATACCCAAATGAGATGGATCTTCCAGCATCATTCTAGCTACCAAGTAACCAGCAATGGACCATGTCTGGAACTTACGCGCCTGCTTTCCAATAAATCGACCAAGCTTTCCGTCGTAATACTCTGGCCAGCTATCTTTTAGTAAACGCGATTCAGCTAGTTCAATGGCCCGTCGTGCTATTTGGGGTCGACCAGTCTTGATAGCTGCTGCAGTAAGGAGCCACAGAAG</genome_strand>
        <mrna_strand>GTGTACAATCTCGTAGCCAATTCATAAAAAATTCAACATTTTTGCGACAAACTAAAAGAGAGTGTTTACGAATTGCAAAAAGAGAGAAAAAAAAAGCATGGCATTCGAAAGAAAATTTGTGTACAAGGATATTAACAAGTCCAAGAAGCAGATCTTTTCATGGTAGGCTTCATCTGTTTATCTTCTTCAAGTGATATCATACCCAAATGAGATGGATCTTCCAGCATCATTCTAGCTACCAAGTAACCAGCAATGGACCATGTCTGGAACTTACGCGCCTGCTTTCCAATAAATCGACCAAGCTTTCCGTCGTAATACTCTGGCCAGCTATCTTTTAGTAAACGCGATTCAGCTAGTTCAATGGCCCGTCGTGCTATTTGGGGTCGACCAGTCTTGATAGCTGCTGCAGTAAGGAGCCACAGAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E208262" ref_strand="-" ref_description="SGN-E208262 [cLEC-37-B6]">
      <seq>aatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggtccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatatcacttgaagaagataaacagatgaagcctaccatgaaaagatctgcttcttggacttgttaatatccttgtacacaaattttctttcgaatgccatgctttttttttctctctttttgcaattcgtaaacactctcttttagtttgtcgcaaaaatgttgaattttttatgaattggctacga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="68710" stop="67290"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68410" g_stop="68392" g_length="19"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="19" r_length="19" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="0.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67590" g_length="417"/>
          <reference_exon_boundary r_type="cDNA" r_start="20" r_stop="436" r_length="417" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E208262" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E208262" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="68410" e_stop="68392"/>
          <exon e_start="68006" e_stop="67590"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGA</genome_strand>
        <mrna_strand>AATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E377720" ref_strand="+" ref_description="SGN-E377720 [TUS-20-K22]">
      <seq>atgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcaagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggtccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatatcacttgaagaaaataaacagatgaaacctaccatgaaaagatctgcttcttggacttgttaatattccttgtacacaaatttttttttcaaatgccatgcttttttttttttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69072" stop="67358"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68772" g_stop="68392" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="381" r_length="381" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67658" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="732" r_length="351" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E377720" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>730</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E377720" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68772" e_stop="68392"/>
          <exon e_start="68006" e_stop="67658"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATA-TCCTTGTACACAAA-TTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTT</genome_strand>
        <mrna_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAAATAAACAGATGAAACCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATTCCTTGTACACAAATTTTTTTTTCAAATGCCATGCTTTTTTTTTTTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E710038" ref_strand="+" ref_description="SGN-E710038 [FA54AB03]">
      <seq>cgcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatgctttgagctttcacatgagaagttactattggctcgacataaaacaactgaatgatatataccgctacaaaacggaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcgagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagttccagacatggtccattgctggttacttggtagctagaatgatgctggaagatccatctcatttgggtatgatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69251" stop="67473"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68950" g_stop="68392" g_length="559"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="570" r_length="559" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67773" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="571" r_stop="804" r_length="234" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E710038" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>793</cumulative_length_of_scored_exons>
        <coverage percentage="0.986" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E710038" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68950" e_stop="68392"/>
          <exon e_start="68006" e_stop="67773"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATAT</genome_strand>
        <mrna_strand>GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTGAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACGGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCGAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E232098" ref_strand="+" ref_description="SGN-E232098 [cLED-7-B14]">
      <seq>atgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcaagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcgatttattggaaagcaggcgcgtaagtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69072" stop="67547"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68772" g_stop="68392" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="381" r_length="381" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67847" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="541" r_length="160" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E232098" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E232098" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68772" e_stop="68392"/>
          <exon e_start="68006" e_stop="67847"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTT</genome_strand>
        <mrna_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E241362" ref_strand="+" ref_description="SGN-E241362 [cLED-28-D5]">
      <seq>atgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcaagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgaccccaaatagcacgacgggccattgaactagctgaatcgcgtttactaaaagatagctggccagagtattacgacggaaagcttggtcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69072" stop="67574"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68772" g_stop="68392" g_length="381"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="381" r_length="381" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67874" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="382" r_stop="514" r_length="133" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E241362" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E241362" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68772" e_stop="68392"/>
          <exon e_start="68006" e_stop="67874"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCG</genome_strand>
        <mrna_strand>ATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E246669" ref_strand="+" ref_description="SGN-E246669 [cLEF-45-C6]">
      <seq>cttgtttctccttaaacacgacgaagaaaaccaagagtggggtgatgcgataattaaacgacttcatgctttaagctttcacatgagaagttactattggctcgacataaaacaactgaatgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatcaagatggcaagagctagttggagaaatgccgctgaaaatctgttatcctgctatggaaggccatgaatggagaattgtaacaggatgcgaccctaaaaacactagttggagttaccacaatggtggcacttggccagttcttctgtggctccttactgcagcagctatcaagactggtcgacccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69191" stop="67659"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68891" g_stop="68392" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.995" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68006" g_stop="67959" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="501" r_stop="548" r_length="48" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E246669" ref_strand="+">
        <total_alignment_score>0.994</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246669" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68891" e_stop="68392"/>
          <exon e_start="68006" e_stop="67959"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAGGTTATAGTTTCTTCCTTCTTATATAACACCAAAAGTACTTCATTCTATTTAGCAATAGTTTGCTATGTCATCTCGCATCACGATGACCAGTATATCTGTCTACTTTTTGGTAGCCTATCATGTCTCCCTATATTCCATTTTATGCATCAATCTTGCTCTTTTAGTCTATTCCGAAAAGAATGATGCCTTTCTATATTTAAAAACCCTTAGTGATACGGTTTATAGCCACAAAAAATGTCATGACATGTTTAAGATCACGTGTTGAACTCTGTGCTCAGTCACACTTTCACATAAAATGAAACCGAGGGAGTACTCTTTTCATGTTCTGCACCGTGACATTTACAAACTTATGCTAATACTGATTTGCCTGGTTTTTTGTGTCTAGTTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCC</genome_strand>
        <mrna_strand>CTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGGGGTGATGCGATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG.................................................................................................................................................................................................................................................................................................................................................................................................TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E706587" ref_strand="+" ref_description="SGN-E706587 [FA30BE07]">
      <seq>gataattctgctgaggaacttaactatgatcaggtttttgtcagagattttgtccccagcgctttggcattcttgatgaatggtgaacctgatatagtaaagaattttcttttgaaaaccttgcgcctccaatctcgggagaagaagatagaccagttcaagttgggggatggagttatgcctgcaagttttaaagtgtctcatgatcctgttaggaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgttgattcagggttctggtggattatactacttcgtgcatacacaaagtctacaggggacacttctttggctgagatgccagaatgccaaaggggtataaggctgattcttgaattatgtctctctgaaggttttgatacattcccaaccctgctgtgcgctgatggatgctctatgattgatcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatgctttaagctttcacatgagaagttactattggctcgacataaaacaactgaatgatatataccgctacaaaacagaagagtactctcacactgcagtanacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggactttcgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagcttccgccataatggatctcgttgaatca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="71271" stop="68228"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="70971" g_stop="70939" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.980" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="70216" g_stop="69785" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="465" r_length="432" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.661" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68950" g_stop="68528" g_length="423"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="888" r_length="423" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E706587" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>888</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E706587" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="70971" e_stop="70939"/>
          <exon e_start="70216" e_stop="69785"/>
          <exon e_start="68950" e_stop="68528"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAATTCTGCTGAGGAACTTAACTATGATCAGGTAAATGCTTATTGTTCTAGTTCTTAGATGGATACAAGTTTGTCTTTATGTATTTTGTTGTGATTTAATATCCCGTGAAGCAGGTCGATTATGTGCTTCAATGGAACTTGTTTTGACGAGTGTCCTCTGATAAGTTGTACTAGATGTTTCTTTACGTAATAAATAGAAAATGGTGAATTCCTATGTCCACACTATAGTTATCAGTGCAACTGATTGGTTTGCGGTTGACTGATAAGATGAAGAGGGGGTATAGTTTGCAGGCCCAGCTATTTCAATGAATATGAGCTAAGCTTGACCGACTGAATTGTTCAAATAGTTTACATAAAAACTTATGTAGAACCAGTGTTGTCAAAGGCGCATTTAAGCCATGAAGCGGGACTCGAAATGTGTCTGAGCACTTTTTCTCGCTTATTGTGCATTCAGCGTCGTTAGCAAGGTTCTCTAAGGCATACTTATCATTGTGAATTAACCTCTTATGACGAGGCGGCACTAAACAATTGATATTTCACTTATTTGTTATTCATGCTTATTTGCGCTTAAAACCCCAATGAACCTTTGAGCGTTTTTGCGTCTGATCTAGAACCAGATTCTAGATATTCTCCAGAGGTAAAACCAGCTTACTGATGGGCCCAGCTTTCCGAAATCCTTTCACAGTCGTCTTTCTCTATGTACATGACAACCATTCTACTTGCAATTTGCAGTTCTGACTTAAAATTTGGCAGGTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATGGTCAGTCTGATGTACTACTATCCGCTCTTTATCGGTTTTTTAAACTAGATCTGACTTATGCTCATGCCTTGTTTTCTGTTTATTACATGCTTGATTTTCTACTTAATATTACATGATGACAGTGATGACAAGATATGAGATAGCTATCAACTGTTACTTCTAGAATAGTATAATTGACCAAATGCATATTTATAATCTGTCAAGATTTGGTTAGCCTACATACTTATTACGTGCTTGATTTTCTATTTCTCGTACATAATGACAGTGATTCTGATTCTGACTTAGGTAAGTTAAGCTTCAAATAGGAGTTCTGCTGAGATTTCACATCATTTGCTTGAAGTTAAGAAATAGGCAGTTGAGCTTTGTCTTGCTTTTTGGCGGGATTAGGCTTGGTGGGAGTCTGGTAGCACTGTGTCTGTCTTAGTATTAGTCGTATACACGTACTTTCTTGCGTTTGACCATCTGTTTTCTATTGTGTTTCAGTTACCGCTTGATTTCGATGTGCTATGTAGTGCTTTCCTTATTAATTGACGTGTTTTCTTCACTGCTGTATCTCCTTTTTCATAACTTCTTTGATGTGCTGCACTTTGAGCTGAGGGTCTTTCGGAAACAACCTCTCTACCTCCACGATGTAGGGGTAAGGTCTGTGTATACACTACCCTCCTGAGACTCCACTTGTGGGATTACACTGGACCAATAAGAAGACTTGTACTCTTTTCTCATATTCTCAATAAATTTGTGGGCATATTAAAATTCTCAATTATTGCAGTTCAACTTCCTTTAAAATATCCACTACTCACATGTCATAAGCACTTTGTTTCATATTGTTCCCAGGGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCA</genome_strand>
        <mrna_strand>GATAATTCTGCTGAGGAACTTAACTATGATCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTANACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTTCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282307" ref_strand="+" ref_description="SGN-E282307 [cLER-18-A9]">
      <seq>tgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatgctttaagctttcacatgagaagttactattggctcgacataaaacaactgaatgatatataccgctacaaaacagaagagtactctcacactgcagtaaacaagtttaatgtgatgccagattcccttccggagtgggtttttgatttcatgccaactcgtggtggttacttcatcggaaatgttagtcctgctcacatggacttccgttggttttgtttgggtaactgtatttcaatcttgtcatctttggctacacctgagcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="69230" stop="68256"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="68930" g_stop="68556" g_length="375"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="375" r_length="375" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E282307" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>375</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282307" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="68930" e_stop="68556"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGC</genome_strand>
        <mrna_strand>TGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E245464" ref_strand="+" ref_description="SGN-E245464 [cLEF-43-I23]">
      <seq>gaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgtagattcagggttctggtggattatactacttcgtgcatacacaaagtctacaggggacacttctttggctgagatgccagaatgccaaaggggtataaggctgattcttgaattatgtctctctgaaggttttgatacattcccaaccctgctgtgcgctgatggatgctctatgattgatcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatgctttaagctttcacatgagaagttactattggctcgacataaaacaactgaatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="70334" stop="68469"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="70034" g_stop="69785" g_length="250"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="250" r_length="250" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.661" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68950" g_stop="68769" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="251" r_stop="432" r_length="182" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E245464" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E245464" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="70034" e_stop="69785"/>
          <exon e_start="68950" e_stop="68769"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATGGTCAGTCTGATGTACTACTATCCGCTCTTTATCGGTTTTTTAAACTAGATCTGACTTATGCTCATGCCTTGTTTTCTGTTTATTACATGCTTGATTTTCTACTTAATATTACATGATGACAGTGATGACAAGATATGAGATAGCTATCAACTGTTACTTCTAGAATAGTATAATTGACCAAATGCATATTTATAATCTGTCAAGATTTGGTTAGCCTACATACTTATTACGTGCTTGATTTTCTATTTCTCGTACATAATGACAGTGATTCTGATTCTGACTTAGGTAAGTTAAGCTTCAAATAGGAGTTCTGCTGAGATTTCACATCATTTGCTTGAAGTTAAGAAATAGGCAGTTGAGCTTTGTCTTGCTTTTTGGCGGGATTAGGCTTGGTGGGAGTCTGGTAGCACTGTGTCTGTCTTAGTATTAGTCGTATACACGTACTTTCTTGCGTTTGACCATCTGTTTTCTATTGTGTTTCAGTTACCGCTTGATTTCGATGTGCTATGTAGTGCTTTCCTTATTAATTGACGTGTTTTCTTCACTGCTGTATCTCCTTTTTCATAACTTCTTTGATGTGCTGCACTTTGAGCTGAGGGTCTTTCGGAAACAACCTCTCTACCTCCACGATGTAGGGGTAAGGTCTGTGTATACACTACCCTCCTGAGACTCCACTTGTGGGATTACACTGGACCAATAAGAAGACTTGTACTCTTTTCTCATATTCTCAATAAATTTGTGGGCATATTAAAATTCTCAATTATTGCAGTTCAACTTCCTTTAAAATATCCACTACTCACATGTCATAAGCACTTTGTTTCATATTGTTCCCAGGGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGA</genome_strand>
        <mrna_strand>GAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTAGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E249886" ref_strand="+" ref_description="SGN-E249886 [cLEF-57-P19]">
      <seq>gagtggcattcttgatgaatggtgaaccctgatatagtaaagaattttcttttgaaaacccttgccgccctccaatctcgggagaagaagatagaccagttcaagttgggggatggagttatgcctgcaagttttaaagtgtctcatgatcctgttaggaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgttgattcagggttctggtggattatactacttcgtgccataccaccaaagtctacaggggacaccttctttggctgagatgccagaatgccaaaggggtataaggctgattcttgaattatgtctctctgaaggttttgatacattcccaaccctgctgtgcgctgatggatgctctatgattgatcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctccttaaacacgacgaagaaaaccaagagtgttgtgatgcaataattaaacgacttcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="70485" stop="68524"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="70188" g_stop="69785" g_length="404"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="412" r_length="412" r_score="0.953"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.661" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="68950" g_stop="68824" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="413" r_stop="539" r_length="127" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E249886" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>531</cumulative_length_of_scored_exons>
        <coverage percentage="0.985" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E249886" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="70188" e_stop="69785"/>
          <exon e_start="68950" e_stop="68824"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTGGCATTCTTGATGAATGGTGAA-CCTGATATAGTAAAGAATTTTCTTTTGAAAA-CCTTG-CG-CCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTG-CATA-CA-CAAAGTCTACAGGGGACA-CTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATGGTCAGTCTGATGTACTACTATCCGCTCTTTATCGGTTTTTTAAACTAGATCTGACTTATGCTCATGCCTTGTTTTCTGTTTATTACATGCTTGATTTTCTACTTAATATTACATGATGACAGTGATGACAAGATATGAGATAGCTATCAACTGTTACTTCTAGAATAGTATAATTGACCAAATGCATATTTATAATCTGTCAAGATTTGGTTAGCCTACATACTTATTACGTGCTTGATTTTCTATTTCTCGTACATAATGACAGTGATTCTGATTCTGACTTAGGTAAGTTAAGCTTCAAATAGGAGTTCTGCTGAGATTTCACATCATTTGCTTGAAGTTAAGAAATAGGCAGTTGAGCTTTGTCTTGCTTTTTGGCGGGATTAGGCTTGGTGGGAGTCTGGTAGCACTGTGTCTGTCTTAGTATTAGTCGTATACACGTACTTTCTTGCGTTTGACCATCTGTTTTCTATTGTGTTTCAGTTACCGCTTGATTTCGATGTGCTATGTAGTGCTTTCCTTATTAATTGACGTGTTTTCTTCACTGCTGTATCTCCTTTTTCATAACTTCTTTGATGTGCTGCACTTTGAGCTGAGGGTCTTTCGGAAACAACCTCTCTACCTCCACGATGTAGGGGTAAGGTCTGTGTATACACTACCCTCCTGAGACTCCACTTGTGGGATTACACTGGACCAATAAGAAGACTTGTACTCTTTTCTCATATTCTCAATAAATTTGTGGGCATATTAAAATTCTCAATTATTGCAGTTCAACTTCCTTTAAAATATCCACTACTCACATGTCATAAGCACTTTGTTTCATATTGTTCCCAGGGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATG</genome_strand>
        <mrna_strand>GAGTGGCATTCTTGATGAATGGTGAACCCTGATATAGTAAAGAATTTTCTTTTGAAAACCCTTGCCGCCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCCATACCACCAAAGTCTACAGGGGACACCTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E710513" ref_strand="+" ref_description="SGN-E710513 [FA55CG01]">
      <seq>ctggaaaggccaagacaagttaatattgaaaggaagaggtcgttcgatgaaagatctttcagcgaaatgtcaatgactcattcaccgccacgtcaggtatacaaaaattcggagaactcttctcgtgtttttgataatatggttggagtgtattcaccaggaaggtggtccggcatacacacacccagatcaaccttcggatatgagccgcatcctataatcggcgaagcatgggaagctttgaggcgttctattgttaacttccgagatcaacctgtgggaactattgctgctatagataattctgctgaggaacttaactatgatcaggtttttgtcagagattttgtccccagcgctttggcattcttgatgaatggtgaacctgatatagtaaagaattttcttttgaaaaccttgcgcctccaatctcgggagaagaagatagaccagttcaagttgggggatggagttatgcctgcaagttttaaagtgtctcatgatcctgttaggaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgttgattcagggttctggtggattatactacttcgtgcatacacaaagtctacaggggacacttctttggctgagatgccagaatgccaaaggggtataaggctgattcttgaattatgtctctctgaaggttttgatacattcccaaccctgctgtgcgctgatggatgctctatgattgatcgcagaatgggtgtctatggctatcctattgaaatacaagcacttttctttatggccttaagatgtgccttgtttctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="71568" stop="68581"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="71268" g_stop="70939" g_length="330"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="330" r_length="330" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.980" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="70216" g_stop="69785" g_length="432"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="762" r_length="432" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834">
            <donor d_prob="0.950" d_score="1.00"/>
            <acceptor a_prob="0.661" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="68950" g_stop="68881" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="763" r_stop="832" r_length="70" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E710513" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E710513" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="71268" e_stop="70939"/>
          <exon e_start="70216" e_stop="69785"/>
          <exon e_start="68950" e_stop="68881"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAGGTAAATGCTTATTGTTCTAGTTCTTAGATGGATACAAGTTTGTCTTTATGTATTTTGTTGTGATTTAATATCCCGTGAAGCAGGTCGATTATGTGCTTCAATGGAACTTGTTTTGACGAGTGTCCTCTGATAAGTTGTACTAGATGTTTCTTTACGTAATAAATAGAAAATGGTGAATTCCTATGTCCACACTATAGTTATCAGTGCAACTGATTGGTTTGCGGTTGACTGATAAGATGAAGAGGGGGTATAGTTTGCAGGCCCAGCTATTTCAATGAATATGAGCTAAGCTTGACCGACTGAATTGTTCAAATAGTTTACATAAAAACTTATGTAGAACCAGTGTTGTCAAAGGCGCATTTAAGCCATGAAGCGGGACTCGAAATGTGTCTGAGCACTTTTTCTCGCTTATTGTGCATTCAGCGTCGTTAGCAAGGTTCTCTAAGGCATACTTATCATTGTGAATTAACCTCTTATGACGAGGCGGCACTAAACAATTGATATTTCACTTATTTGTTATTCATGCTTATTTGCGCTTAAAACCCCAATGAACCTTTGAGCGTTTTTGCGTCTGATCTAGAACCAGATTCTAGATATTCTCCAGAGGTAAAACCAGCTTACTGATGGGCCCAGCTTTCCGAAATCCTTTCACAGTCGTCTTTCTCTATGTACATGACAACCATTCTACTTGCAATTTGCAGTTCTGACTTAAAATTTGGCAGGTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATGGTCAGTCTGATGTACTACTATCCGCTCTTTATCGGTTTTTTAAACTAGATCTGACTTATGCTCATGCCTTGTTTTCTGTTTATTACATGCTTGATTTTCTACTTAATATTACATGATGACAGTGATGACAAGATATGAGATAGCTATCAACTGTTACTTCTAGAATAGTATAATTGACCAAATGCATATTTATAATCTGTCAAGATTTGGTTAGCCTACATACTTATTACGTGCTTGATTTTCTATTTCTCGTACATAATGACAGTGATTCTGATTCTGACTTAGGTAAGTTAAGCTTCAAATAGGAGTTCTGCTGAGATTTCACATCATTTGCTTGAAGTTAAGAAATAGGCAGTTGAGCTTTGTCTTGCTTTTTGGCGGGATTAGGCTTGGTGGGAGTCTGGTAGCACTGTGTCTGTCTTAGTATTAGTCGTATACACGTACTTTCTTGCGTTTGACCATCTGTTTTCTATTGTGTTTCAGTTACCGCTTGATTTCGATGTGCTATGTAGTGCTTTCCTTATTAATTGACGTGTTTTCTTCACTGCTGTATCTCCTTTTTCATAACTTCTTTGATGTGCTGCACTTTGAGCTGAGGGTCTTTCGGAAACAACCTCTCTACCTCCACGATGTAGGGGTAAGGTCTGTGTATACACTACCCTCCTGAGACTCCACTTGTGGGATTACACTGGACCAATAAGAAGACTTGTACTCTTTTCTCATATTCTCAATAAATTTGTGGGCATATTAAAATTCTCAATTATTGCAGTTCAACTTCCTTTAAAATATCCACTACTCACATGTCATAAGCACTTTGTTTCATATTGTTCCCAGGGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCC</genome_strand>
        <mrna_strand>CTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E703207" ref_strand="+" ref_description="SGN-E703207 [FA20DD11]">
      <seq>cttagatctcactaaagttcgccgtagccgccgccgccgccgatagctttgagatctttggattcgatttcttattgtctaggacttttggaagtattggaagatgcctagccctgtggatgtgtctcaaaatgggaatgcaagacacgcggaagctgctccatccttgtttgaaatcgaggaagatttggctagattgctggaaaggccaagacaagttaatattgaaaggaagaggtcgttcgatgaaagatctttcagcgaaatgtcaatgactcattcaccgccacgtcaggtatacaaaaattcggagaactcttctcgtgtttttgataatatggttggagtgtattcaccaggaaggtggtccggcatacacacacccagatcaaccttcggatatgagccgcatcctataatcggcgaagcatgggaagctttgaggcgttctattgttaacttccgagatcaacctgtgggaactattgctgctatagataattctgctgaggaacttaactatgatcaggtttttgtcagagattttgtccccagtgctttggcattcttgatgaatggtgaacctgatatagtaaagaattttattctgaaaaccttgcgcctccaatctcgggagaagaagatagaccagttcaagttgggggatggagttatgcctgcaagttttaaagtgtctcatgatcctgttaggaactatgagactataactgctgatttcggtgaaagtgctattggtagagttgctcctgttgattcagggttctggtggattatactacttcgtgcatacacaaagtctacagggga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="72421" stop="69618"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="72121" g_stop="72067" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="0.891"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652">
            <donor d_prob="0.993" d_score="0.88"/>
            <acceptor a_prob="0.522" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="71414" g_stop="70939" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="529" r_length="476" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.980" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="70216" g_stop="69918" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="530" r_stop="828" r_length="299" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E703207" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>830</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703207" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="72121" e_stop="72067"/>
          <exon e_start="71414" e_stop="70939"/>
          <exon e_start="70216" e_stop="69918"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAGGTTGTTATTACCAGCTCCTAGGTTATTTATTTTGTGTTTTATCTATGTTTCTTAATTTTTTCATTTTTCTGTTTGTTTCGATGATATTAAGGTTTTTCTGCATTTGAGATTTTTCATTTTGTGCTGGTTTCAGTATTTGCTGGATTGATCAAAGTATGAATTAAAAAGAAAGAAGTAAATTGATAAAGTAAAAGAAGATCTAACAGTAGTTTGACTTTGATTGTTTAATTAAGTTAATGATTATGATTAATTAATTAAAATTGTGTGTAAGAACTTGCTCTAATTTTGCTCAAGTTGAATTAAACCAAACTTATAGTGAATAAATATTGCTTGTAAATGAAAAAAATGTTGATTTTCTGATCTGGTGTATATTTCAATTTAATGTATTCCAAGTATAAGAGGCATTAATTGCACTCTTTATTACAAGTTGATTGTATTCTTTATTATGTAAGTTCTTGTTTGATGTAGCTCGGACTCTCCAAAAATGTTGCTGCAGCCCATTGGATCCTCCAAAAGAGGAACCTTTCGGAGGATCCGACACACACTTGTTTGATGTTTTTGGAGAGTCTGAGCTATATAGCTTTGTGTTTACTAAGCTTCTGTTACGGGGGCGAATTCTTAAAAGTTTTCTTATTTCATTGGTGATATGCAGATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAGGTAAATGCTTATTGTTCTAGTTCTTAGATGGATACAAGTTTGTCTTTATGTATTTTGTTGTGATTTAATATCCCGTGAAGCAGGTCGATTATGTGCTTCAATGGAACTTGTTTTGACGAGTGTCCTCTGATAAGTTGTACTAGATGTTTCTTTACGTAATAAATAGAAAATGGTGAATTCCTATGTCCACACTATAGTTATCAGTGCAACTGATTGGTTTGCGGTTGACTGATAAGATGAAGAGGGGGTATAGTTTGCAGGCCCAGCTATTTCAATGAATATGAGCTAAGCTTGACCGACTGAATTGTTCAAATAGTTTACATAAAAACTTATGTAGAACCAGTGTTGTCAAAGGCGCATTTAAGCCATGAAGCGGGACTCGAAATGTGTCTGAGCACTTTTTCTCGCTTATTGTGCATTCAGCGTCGTTAGCAAGGTTCTCTAAGGCATACTTATCATTGTGAATTAACCTCTTATGACGAGGCGGCACTAAACAATTGATATTTCACTTATTTGTTATTCATGCTTATTTGCGCTTAAAACCCCAATGAACCTTTGAGCGTTTTTGCGTCTGATCTAGAACCAGATTCTAGATATTCTCCAGAGGTAAAACCAGCTTACTGATGGGCCCAGCTTTCCGAAATCCTTTCACAGTCGTCTTTCTCTATGTACATGACAACCATTCTACTTGCAATTTGCAGTTCTGACTTAAAATTTGGCAGGTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGA</genome_strand>
        <mrna_strand>CTTAGATCTCACTAAAGTTCGCCGTAGCCGCCGCCGCCGCCG-ATA-GCTTTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTTTGTCAGAGATTTTGTCCCCAGTGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTATTCTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E312238" ref_strand="+" ref_description="SGN-E312238 [cTOA-5-D5]">
      <seq>gaaaccttagatctcactgaagttcgccgtagccgccgccgccggcgccgatactttgagatctttggattcgatttcttattgtctaggacttttggaagtattggaagatgcctagccctgtggatgtgtctcaaaatgggaatgcaagacacgcggaagctgctccatccttgtttgaaatcgaggaagatttggctagattgctggaaaggccaagacaagttaatattgaaaggaagaggtcgttcgatgaaagatctttcagcgaaatgtcaatgactcattcaccgccacgtcaggtatacaaaaattcggagaactcttctcgtgtttttgataatatggttggagtgtattcaccaggaaggtggtccggcatacacacacccagatcaaccttcggatatgagccgcatcctataatcggcgaagcatgggaagctttgaggcgttctattgttaacttccgagatcaacctgtgggaactattgctgctatagataattctgctgaggaacttaactatgatcaggttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="72426" stop="70637"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="72126" g_stop="72067" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="60" r_length="60" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652">
            <donor d_prob="0.993" d_score="0.98"/>
            <acceptor a_prob="0.522" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="71414" g_stop="70939" g_length="476"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="536" r_length="476" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="70938" i_stop="70856" i_length="83">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.956" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="70855" g_stop="70850" g_length="6"/>
          <reference_exon_boundary r_type="cDNA" r_start="537" r_stop="542" r_length="6" r_score="0.500"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E312238" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>542</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E312238" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="72126" e_stop="72067"/>
          <exon e_start="71414" e_stop="70939"/>
          <exon e_start="70855" e_stop="70850"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAGGTTGTTATTACCAGCTCCTAGGTTATTTATTTTGTGTTTTATCTATGTTTCTTAATTTTTTCATTTTTCTGTTTGTTTCGATGATATTAAGGTTTTTCTGCATTTGAGATTTTTCATTTTGTGCTGGTTTCAGTATTTGCTGGATTGATCAAAGTATGAATTAAAAAGAAAGAAGTAAATTGATAAAGTAAAAGAAGATCTAACAGTAGTTTGACTTTGATTGTTTAATTAAGTTAATGATTATGATTAATTAATTAAAATTGTGTGTAAGAACTTGCTCTAATTTTGCTCAAGTTGAATTAAACCAAACTTATAGTGAATAAATATTGCTTGTAAATGAAAAAAATGTTGATTTTCTGATCTGGTGTATATTTCAATTTAATGTATTCCAAGTATAAGAGGCATTAATTGCACTCTTTATTACAAGTTGATTGTATTCTTTATTATGTAAGTTCTTGTTTGATGTAGCTCGGACTCTCCAAAAATGTTGCTGCAGCCCATTGGATCCTCCAAAAGAGGAACCTTTCGGAGGATCCGACACACACTTGTTTGATGTTTTTGGAGAGTCTGAGCTATATAGCTTTGTGTTTACTAAGCTTCTGTTACGGGGGCGAATTCTTAAAAGTTTTCTTATTTCATTGGTGATATGCAGATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAGGTAAATGCTTATTGTTCTAGTTCTTAGATGGATACAAGTTTGTCTTTATGTATTTTGTTGTGATTTAATATCCCGTGAAGCAGGTCGAT</genome_strand>
        <mrna_strand>GAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGGCGCCGATACTTTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG...................................................................................GTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E306616" ref_strand="+" ref_description="SGN-E306616 [cLEY-19-K11]">
      <seq>ttcctcggaaaccttatatctcactgaagttcgccgtagccgccgccgccgccgccgatactttgagatctttggattcgatttcttattgtctaggacttttggaagtattggaagatgcctagccctgtggatgtgtctcaaaatgggaatgcaagacacgcggaagctgctccatccttgtttgaaatcgaggaagatttggctagattgctggaaaggccaagacaagttaatattgaaaggaagaggtcgttcgatgaaagatctttcagcgaaatgtcaatgactcattcaccgccacgtcaggtatacaaaaattcggagaactcttctcgtgtttttgataatatggttggagtgtattcaccaggaaggtggtccggcatacacacacccagatcaaccttcggatatgagccgcatcctataatcggcgaagcatgggaagctttgaagcgttctattgttaacttccgagatcaacctgtgggaactattgctgctatagataattctgctgaggaacttaactatgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="72433" stop="70642"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="72133" g_stop="72067" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="67" r_length="67" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.522" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="71414" g_stop="70942" g_length="473"/>
          <reference_exon_boundary r_type="cDNA" r_start="68" r_stop="540" r_length="473" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E306616" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>540</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E306616" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="72133" e_stop="72067"/>
          <exon e_start="71414" e_stop="70942"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAGGTTGTTATTACCAGCTCCTAGGTTATTTATTTTGTGTTTTATCTATGTTTCTTAATTTTTTCATTTTTCTGTTTGTTTCGATGATATTAAGGTTTTTCTGCATTTGAGATTTTTCATTTTGTGCTGGTTTCAGTATTTGCTGGATTGATCAAAGTATGAATTAAAAAGAAAGAAGTAAATTGATAAAGTAAAAGAAGATCTAACAGTAGTTTGACTTTGATTGTTTAATTAAGTTAATGATTATGATTAATTAATTAAAATTGTGTGTAAGAACTTGCTCTAATTTTGCTCAAGTTGAATTAAACCAAACTTATAGTGAATAAATATTGCTTGTAAATGAAAAAAATGTTGATTTTCTGATCTGGTGTATATTTCAATTTAATGTATTCCAAGTATAAGAGGCATTAATTGCACTCTTTATTACAAGTTGATTGTATTCTTTATTATGTAAGTTCTTGTTTGATGTAGCTCGGACTCTCCAAAAATGTTGCTGCAGCCCATTGGATCCTCCAAAAGAGGAACCTTTCGGAGGATCCGACACACACTTGTTTGATGTTTTTGGAGAGTCTGAGCTATATAGCTTTGTGTTTACTAAGCTTCTGTTACGGGGGCGAATTCTTAAAAGTTTTCTTATTTCATTGGTGATATGCAGATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGAT</genome_strand>
        <mrna_strand>TTCCTCGGAAACCTTATATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAAGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340707" ref_strand="+" ref_description="SGN-E340707 [cTOF-1-J14]">
      <seq>tccattgcgctctctctctttcaaactctaaaagtttcttcaatctgcaatggcgaagtccaaaaaaccaaaaaattcttgcgatagagaaaaatggaacaaagtgttcaatgctttatttcacatgttgacatcacagcagacgcagcttgaatcccttgcacaagagagaatgattcttgaagatcggataaaattacagaatgatcgatgggtatctgatattcatagatttcaagaacaaatttatgagatgaggaaaaactttacaattcaagagatggagcgcatgcttgaagttgcgaaatcggagtttgttgttggtttgaagcaacgagatgttgccgtgttccaaagaaagctcgaaaatgccgatggagaactggctgacttgagagaatggtttgactacctctctcagagatgctctgagccaaatgatgtaccaaatgctgcaacaaatgaaaagtccgatacaagaaagaatgcttgggaagatgaggtgaggaggcttaaaacagaaaatgagaagcttacttcagagaaaaattctgagatttctgccctcttggcagaatataatcttattaggaaccagatcaacaaactggggcacgacatgactgagcaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="74700" stop="77668"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="75000" g_stop="75252" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="253" r_length="253" r_score="0.988"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="75253" i_stop="75357" i_length="105">
            <donor d_prob="0.965" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="75358" g_stop="75469" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="365" r_length="112" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="75470" i_stop="76970" i_length="1501">
            <donor d_prob="0.890" d_score="1.00"/>
            <acceptor a_prob="0.899" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="76971" g_stop="77044" g_length="74"/>
          <reference_exon_boundary r_type="cDNA" r_start="366" r_stop="439" r_length="74" r_score="0.959"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="77045" i_stop="77175" i_length="131">
            <donor d_prob="0.988" d_score="0.98"/>
            <acceptor a_prob="0.989" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="77176" g_stop="77368" g_length="193"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="632" r_length="193" r_score="0.953"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E340707" ref_strand="+">
        <total_alignment_score>0.975</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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E340707" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="75000" e_stop="75252"/>
          <exon e_start="75358" e_stop="75469"/>
          <exon e_start="76971" e_stop="77044"/>
          <exon e_start="77176" e_stop="77368"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCATTGCGCTCTCTCTCTTTCAAACTCTAAAAGTTTCTTCAATCTGCAATGGCGAAGTCCAAAAAACCAAAAAATTCTTCCGATAGAGAAAAATGGAACAAAGTGTTCAATGCTTTAGTTCACATGTTGACATCACAGCAGACGCAGCTTGAATCCCTTGCAAAAGAGAGAATGATTCTTGAAGATCGGATAAAATTACAGAATGATCGATGGGTATCTGATATTCATAGATTTCAAGAACAAATTTATGAGGTTACTTTGATTTTCTTCTTGAATTTTGCATTTTTACTTATTTAGGGTTTTGATTGCTTGGAATTTTAGGGCTTTTGATTAAATTGGGTTCTTTTGCGTTTGCAGATGAGGAAAAACTTTACAATTCAAGAGATGGAGCGCATGCTTGAGGTTGCGAAATCGGAGTTTGTTGTTGGTTTGAAGCAACGAGATGTTGCCGTGTTCCAAAGAAAGCTCGGTGAGTTTATATTTGAAAAAGAAAAGAACTTTTTCTTGCCCTAAGCTTTGTTTGGTTTATACGAAATGATGGAAATTTGAGCAAATTGTGGACCTTTACTTGCCTTGCTGTTTATTTCCCGACTCGTTGAGTTTAAAATCAGGTAGGAAGTAGAGATTTCTTATTGCTATGCACAGGGACAGAGCCTGGTGGGAGCAAGGGGATTTATGCATATATAGCTCAGTAAATATTTTGGCTCCGCCACTAGCTATGTAGAGTTCAAAGACGATAAATATTAACTTTGAAGTTGTCCTTCTCTTCTCTTTCTTTACCTGATAAGGATGGTACTATTCATGATTACTGCCTTTGATAACTTTTATGAGCCTTATTTTGTGCTGGGGTGTCGCCACAAAGTACAGTGTCACTGCCTAAACAATATTGCTGTTTAAGATAATCAATTTGATAGTGGAGCTTGAAGTCTTGAACATACAATATCTTTTTCTTACTCAATATGGTTCTCTCAATATACTTTTATGAATCCAACCATGAATAAAGTTGCATAATTTATTTTCTTTTGATAGCTTAGAAATCTTCAAGGGCTAGTGGCACTCGTGTTAGTTAAATTGGGAGGGAATTGAAACAGTTATCTGTTACGTCTAGTGGCGCACGTGTCATATTAGTTGGAACGGAGTAGAAACAGTTACATGTCAGGGTTTCTATTAATCCACCCCATTTCCCATTAGATAAGTTAAATTCTTTCAATACACTTTTACGAACTTAATACTGAAATAAAGTACATCATAGCACTTCATTCAGTTTGGAGAAGTTTATAAAAGTCCTAAGGAAGCAGAATGGCATACAGTTCCCTGATTATATGCTAACTTTCTCCTTCTACAGACCTTGGAACAAGAGAAGGAAAAAGAATCTTGAACAGAGAAGATATGGTCTTTTATAGCGTTCGTGCTTTTTTTCCTGTCATCTGAGGAGTGAGGGAGGGAAGGAAAGAAGGAAGGAGAAAATAAAGGGAAGAGACCTCAGGGTGGTTTTTTTGGACATGAGTGGCTGAACTTTAATTCCGAGACTGAATAAAGGGCATGTTACCTCTTTTTTTTCCTCTAGTTGACTCACTTTCTCCAACTCACTCAATTTCACTTGTACACATTTCAACTCTTGTTCTAAAATTCTCTTTGCATCTCAGCTCAGGGCACACTGATATTTCTTTTCGTGCATCTTCAAGATTGTCAAAGTGGATCATTTAAATTAGCAATAATGGAGTTTCTGTGTGTAATCAAAAAATTATGCAACCACATATCCTCTACACACTCGAACACACTTCTTTATGTATAAAGTTATCAGTTCAGTTTTTATTGCAAGAGGCTATTTTAGACTTTCTTGCTCTTGAAAGATGGCTCCCCATCCCAGTGTATCAGTAGCCTTTATTGTTCAAGGATAGACATGATCTCTTAAGTTATATCATCCCAGCATTCAATTTGGTTACTTACTATTCACCTAAAAAGTGCAGAAAATGCAGATGGTGAACTGGCTGACTTCAGAGAATGGTTTGACTACCTCTCTCAGAGATGCTCTGAGCCAAATGTATGTTGTTTCAATTGCCTTTTCTATTATGAATGTTGTTTCTCATCGCCTTTCTGAGTTTTTAGTTTATTATTTGCGCTAGTAATAAAAAACTAGAAGATGAGATGTATGAATGTTCATTTGATCCACAGGATGTACCAAATGCTGCAACAAATGAAAAGTCGGAGACAAGAAAGAAGGCTTGGGAAGATGAGGTGAGGAGGCTTAAAACAGAAAATGAGAAGCTTACTTCAGAGAAAAATTCTGAGATTTCTGCCCTCTTGGCAGAAAAGAATTTTATTTGGAACCAGTTCAACAAACTGGAGCACGACATGACTGAGCAAT</genome_strand>
        <mrna_strand>TCCATTGCGCTCTCTCTCTTTCAAACTCTAAAAGTTTCTTCAATCTGCAATGGCGAAGTCCAAAAAACCAAAAAATTCTTGCGATAGAGAAAAATGGAACAAAGTGTTCAATGCTTTATTTCACATGTTGACATCACAGCAGACGCAGCTTGAATCCCTTGCACAAGAGAGAATGATTCTTGAAGATCGGATAAAATTACAGAATGATCGATGGGTATCTGATATTCATAGATTTCAAGAACAAATTTATGAG.........................................................................................................ATGAGGAAAAACTTTACAATTCAAGAGATGGAGCGCATGCTTGAAGTTGCGAAATCGGAGTTTGTTGTTGGTTTGAAGCAACGAGATGTTGCCGTGTTCCAAAGAAAGCTCG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAATGCCGATGGAGAACTGGCTGACTTGAGAGAATGGTTTGACTACCTCTCTCAGAGATGCTCTGAGCCAAAT...................................................................................................................................GATGTACCAAATGCTGCAACAAATGAAAAGTCCGATACAAGAAAGAATGCTTGGGAAGATGAGGTGAGGAGGCTTAAAACAGAAAATGAGAAGCTTACTTCAGAGAAAAATTCTGAGATTTCTGCCCTCTTGGCAGAATATAATCTTATTAGGAACCAGATCAACAAACTGGGGCACGACATGACTGAGCAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E392665" ref_strand="-" ref_description="SGN-E392665 [TUS-36-F23](-)">
      <seq>cgattgggtaccgggccccccccttcacacttcacatttttacagctgattttttcgaattgaatcctgaaaatgtcgtctgaagactcaaagccagtgaggaaagtggaaagtgacgacggagaaagcattgggtctctttttaacagcaaaaagaaacctaacaataatgccgcttcaaaatctcagcctctcaaaaaagctaagattaagaaagaagaaaaagatgatgatttcgaagaacccatttcgaaaaagagtccaaaaattgttaagcccaagaaggaagaaccttcacccgtgtcaaagaaaagttcgagtagaactgataaaaaagttgtaaagaaagaggaagaggataagaagaaaggaaccaaaaatggagacaccgttgtgaagaagaaggaaaagaaagtttatgatttgcctggacagaagagagacgctcctgaggaaagagaccctttaaggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83103" stop="86232"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83404" g_stop="83715" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="333" r_length="312" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83716" i_stop="83794" i_length="79">
            <donor d_prob="0.467" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83795" g_stop="83917" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="334" r_stop="456" r_length="123" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="83998" g_stop="84068" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="457" r_stop="527" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="85820" g_stop="85932" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="528" r_stop="640" r_length="113" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E392665" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>619</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E392665" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="83404" e_stop="83715"/>
          <exon e_start="83795" e_stop="83917"/>
          <exon e_start="83998" e_stop="84068"/>
          <exon e_start="85820" e_stop="85932"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTTCACACTTCACATTTTTACAGCTGATTTTTTCGAATTGAATCCTGAAAATGTCGTCTGAAGACTCAAAGCCAGTGAGGAAAGTGGAAAGTGACGACGGAGAAAGCATTGGGTCTCTTTTTAACAGCAAAAAGAAACCTAACAATAATGCCGCTTCAAAATCTCAGCCTCTCAAAAAAGCTAAGATTAAGAAAGAAGAAAAAGATGATGATTTCGAAGAACCCATTTCGAAAAAGAGTCCAAAAATTGTTAAGCCCAAGAAGGAAGAACCTTCACCCGTGTCAAAGAAAAGTTCGAGTAGAACTGATAAAGTTGGTATTTTTATTTGTGCATTTTTTGTTATTTTACTGTTTGATTTGTTGGTTTTTTAATTGGGTTTTTTGTGTGTAGAAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAAGTATGTTCCAAATTTGCATGTTAAAAAAAACATTTTTTATGGTTTCAATCTGATCTAATGTTATATTTTTTGATTTTCAGAGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTG</genome_strand>
        <mrna_strand>CCTTCACACTTCACATTTTTACAGCTGATTTTTTCGAATTGAATCCTGAAAATGTCGTCTGAAGACTCAAAGCCAGTGAGGAAAGTGGAAAGTGACGACGGAGAAAGCATTGGGTCTCTTTTTAACAGCAAAAAGAAACCTAACAATAATGCCGCTTCAAAATCTCAGCCTCTCAAAAAAGCTAAGATTAAGAAAGAAGAAAAAGATGATGATTTCGAAGAACCCATTTCGAAAAAGAGTCCAAAAATTGTTAAGCCCAAGAAGGAAGAACCTTCACCCGTGTCAAAGAAAAGTTCGAGTAGAACTGATAAA...............................................................................AAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAA................................................................................AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E353023" ref_strand="-" ref_description="SGN-E353023 [cTOS-14-M24]">
      <seq>actttttcatcttgttgttatatatatcaatctacgcctcgtgaacttgctttaaaaaaaaagacagaagagagacgctcntgaggaaagagaccctttaaggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactgtgaaaaagaccacggagtctgttactattaagaagacaacatcctcgtcaaccacgccatcaacacagaaaaagaaaacaccagattctggaaaaacggaatcaatgcagcggtcaaagaaacggaagcttaaggatgattcttctgaagaagactcagatgatggtttcattgcaactcttaaaagcacaaagagacagaaagcctcttgatgtttctaatggcttagtgaaattgtagatgagaaattaaatactctgttacatgcatttcaatttctccattatgtaaaagttgacctttgttctctcattttctccattgtgtttttccaggctctaaactttgaatacaattaaaaaaaaatgtatctcaaacttcattcattgcccttaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83592" stop="86632"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83795" g_stop="83800" g_length="6"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="65" r_length="6" r_score="0.667"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83801" i_stop="83894" i_length="94">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83895" g_stop="83917" g_length="23"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="88" r_length="23" r_score="0.957"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80">
            <donor d_prob="0.984" d_score="0.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="83998" g_stop="84068" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="159" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="85820" g_stop="86332" g_length="513"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="672" r_length="513" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E353023" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>613</cumulative_length_of_scored_exons>
        <coverage percentage="0.912" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E353023" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="83795" e_stop="83800"/>
          <exon e_start="83895" e_stop="83917"/>
          <exon e_start="83998" e_stop="84068"/>
          <exon e_start="85820" e_stop="86332"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAAGTATGTTCCAAATTTGCATGTTAAAAAAAACATTTTTTATGGTTTCAATCTGATCTAATGTTATATTTTTTGATTTTCAGAGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACTTCATTCATTGCCCTTAAGAAA</genome_strand>
        <mrna_strand>AAAGAC..............................................................................................AGAAGAGAGACGCTCNTGAGGAA................................................................................AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACTTCATTCATTGCCCTTAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E397924" ref_strand="-" ref_description="SGN-E397924 [TUS-36-F23]">
      <seq>aaagttgtaaagaaagaggaagaggataagaagaaaggaaacaaaaatggagacaccgttgtgaagaagaaggaaaagaaagtttatgatttgcctggacagaagagagacgctcttgaggaaagagaccctttaaggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactgtgaaaaagaccacggagtctgttactattaagaagacaacatcctcgtcaaccacgccatcaacacagaaaaagaaaacaccagattctggaaaaacggaatcaatgcagcggtcaaagaaacggaagcttaaggatgattcttctgaagaagactcagatgatggtttcattgcaactcttaaaagcacaaagagacagaaagcctcttgatgtttctaatggcttagtgaaattgtagatgagaaattaaatactctgttacatgcatttcaatttctccattatgtaaaagttgacctttgttctctcattttctccattgtgtttttccaggctctaaactttgaatacaattaaaaaaaaatgtatctcaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83495" stop="86609"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83795" g_stop="83917" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="123" r_length="123" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80">
            <donor d_prob="0.984" d_score="0.98"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83998" g_stop="84068" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="194" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="85820" g_stop="86312" g_length="493"/>
          <reference_exon_boundary r_type="cDNA" r_start="195" r_stop="687" r_length="493" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E397924" ref_strand="-">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>687</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E397924" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="83795" e_stop="83917"/>
          <exon e_start="83998" e_stop="84068"/>
          <exon e_start="85820" e_stop="86312"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAAGTATGTTCCAAATTTGCATGTTAAAAAAAACATTTTTTATGGTTTCAATCTGATCTAATGTTATATTTTTTGATTTTCAGAGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACTT</genome_strand>
        <mrna_strand>AAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAAACAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCTTGAGGAA................................................................................AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E312950" ref_strand="+" ref_description="SGN-E312950 [cTOA-14-K17]">
      <seq>ggttgtaaagaaagaggaagaggataagaagaaaggaaccaaaaatggagacaccgttgtgaagaagaaggaaaagaaagtttatgatttgcctggacagaagagagacgctcctgaggaaagagaccctttaaggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactgtgaaaaagaccacggagtctgttactattaagaagacaacatcctcgtcaaccacgccatcaacacagaaaaagaaaacaccagattctggaaaaacggaatcaatgcagcggtcaaagaaacggaagcttaaggatgattcttctgaagaagactcagatgatggtttcattgcaactcttaaaagcacaaagagacagaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83498" stop="86434"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83797" g_stop="83917" g_length="121"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="121" r_length="121" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83998" g_stop="84068" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="192" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="85820" g_stop="86134" g_length="315"/>
          <reference_exon_boundary r_type="cDNA" r_start="193" r_stop="507" r_length="315" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E312950" 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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E312950" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83797" e_stop="83917"/>
          <exon e_start="83998" e_stop="84068"/>
          <exon e_start="85820" e_stop="86134"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAAGTATGTTCCAAATTTGCATGTTAAAAAAAACATTTTTTATGGTTTCAATCTGATCTAATGTTATATTTTTTGATTTTCAGAGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAA</genome_strand>
        <mrna_strand>GGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAA................................................................................AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E357913" ref_strand="+" ref_description="SGN-E357913 [cTOS-24-P5]">
      <seq>agagacgctcctgaggaaagagaccctttaaggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactgtgaaaaagaccacggagtctgttactattaagaagacaacatcctcgtcaaccacgccatcaacacagaaaaagaaaacaccagattctggaaaaacggaatcaatgcagcggtcaaagaaacggaagcttaaggatgattcttctgaagaagactcagatgatggtttcattgcaactcttaaaagcacaaagagacagaaagcctcttgatgtttctaatggcttagtgaaattgtagatgagaaattaaatactctgttacatgcatttcaatttctccattatgtaaaagttgacctttgttctctcattttctccattgtgtttttccaggctctaaactttgaatacaattaaaaaaaaatgtaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83600" stop="86602"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="83900" g_stop="83917" g_length="18"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="18" r_length="18" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80">
            <donor d_prob="0.984" d_score="0.00"/>
            <acceptor a_prob="0.967" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="83998" g_stop="84068" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="19" r_stop="89" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="85820" g_stop="86301" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="90" r_stop="571" r_length="482" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="572" polyA_stop="586"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E357913" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>571</cumulative_length_of_scored_exons>
        <coverage percentage="0.974" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E357913" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="83900" e_stop="83917"/>
          <exon e_start="83998" e_stop="84068"/>
          <exon e_start="85820" e_stop="86301"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGACGCTCCTGAGGAAGTATGTTCCAAATTTGCATGTTAAAAAAAACATTTTTTATGGTTTCAATCTGATCTAATGTTATATTTTTTGATTTTCAGAGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGT</genome_strand>
        <mrna_strand>AGAGACGCTCCTGAGGAA................................................................................AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E244645" ref_strand="-" ref_description="SGN-E244645 [cLED-38-C15]">
      <seq>aggattttctatgaatccttgtatcagcaagtgccagaaagtgaactagcagctatttggatgatggagtcaggtttgcttccaaaggacttggcgaagaaagtttttgagaagaaacaaaagaaggcccagcagctaaagcttggttcacctctgaaaacggttgtgactgtgaaaaagaccacggagtctgttactattaagaagacaacatcctcgtcaaccacgccatcaacacagaaaaagaaaacaccagattctggaaaaacggaatcaatgcagcggtcaaagaaacggaagcttaaggatgattcttctgaagaagactcagatgatggtttcattgcaactcttaaaagcacaaagagacagaaagcctcttgatgtttctaatggcttagtgaaattgtagatgagaaattaaatactctgttacatgcatttcaatttctccattatgtaaaagttgacctttgttctctcattttctccattgtgtttttccaggctctaaactttgaatacaattaaaaaaaaatgtatctcaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="83710" stop="86609"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="84010" g_stop="84068" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751">
            <donor d_prob="0.919" 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="85820" g_stop="86311" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="551" r_length="492" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E244645" 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="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E244645" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="84010" e_stop="84068"/>
          <exon e_start="85820" e_stop="86311"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTGGTATAACATTCTACCTTTTAAATGATTTTGAATAAGTTATTCTTGGGTAACTCTCTTGTCGTTAGTGTTTTTGAGTATCGTGATGAAGCTGTCTCTATCTTCTTTGAGTTGGTGTTGGTTGAAAAAAATGAACCTTGAATATTATTATGTTCTTAAAGGTCAAATTTTGTTCTTGTCCTAACAGTGTGTGTGTTATCCACCTGGTTGATGCTTCTGTATTAGCTCATGCTTTCATTTAGCGTTCACTTTGTCGAATGAGTAACTATTCTTAGTCTAGTTGTTTAGATGTGTTCATTTTCAAACTGAAAGAAGAGTAGGGGTAAGAAACTTCTGTTTGTATCTGGGTGCCCCTTAGATGCATAGTGTATTTTTGCGTATTGTACAACAGATAGTGAAATATGAGGTGTGTTGCTTGAATGTCAACGTGTGTGGAAGAGCAAGTTGGCTGGAAACAGCTAAAGAAAGCTTGTGAAGTAAGCAGTTCTATGTGAAAAGAATAGCCCACACTCGTAAACTTATATGTCATTTTTTCGTCCCTTTTTTTTTAGTAAAGAAGCATCAGCATGATAGAAGTTGCATGCCTACAACTGAGATGCTTAGTGAAGTTGCTAATTGAGTAAGTATCCATTGGACAAGGAAATCTGTATCTTGACTTGGCCCTTTTCGCCCAGTTAAGTACAATACATATTTGGCCACCTTAGTCGTAATCTAAGAGGTTAAGCTTACTATGATCATCTAATGCGCTACTTTAGATTTGTTATAGGAAAAAATCTACTTTAGTTTGAATCTGCAGAAATCATCTTTCAAGTGTTTATTTGAACATAAGAAAAAATGAAATTATAAGTATATAAGCTTTGTTATAACTTCATTAAAACTTCCGTCTGGAATGAGAAAATGGATTGTTTCAACCCTTTGACACTATATGATGAGTTCAGCTGACTTCTGACTGAAATTGTGACATATCTAAGGTGAAAACTTTTCTGGTAGTGCATTTTTCCACTTATTGACTATGGTTTGATATCATCCTTATGCAAAGCACTGTGTCCCTGGGCACAAGCTTTTACATTGAGTGCTTGGGGGATTAAGTTAAAGTTGTCACCAAGAATAGTTTGTGATACTAATGAGTGTTGTTAGTGGTTATAATGCAAATTAATATGCGTGTCTGAAGCTTAAGATGTGAGTTTAGACTGTTTAGTCAGCTCATTTGACATGATTTTGATGAAATATTGGTGCAATTACTTCAACCAAAATCCCAGGGCTTACTTATGACTGTTCTGTTGCAGCACATGCGATGAAACTATTTAGCCCATTCTTTGCATTATCGTGCTTAGACGTCACTCAATTTCTTGAGATCTGCTGTGGATTGATGCTAAAAACTATGTCTAATGTTGCTCATCTAATCCCTGATACAAATTGTCACTCTTCCCTTTCTGTCTCACTAAATCCACCCCGATCACCAAACAAGCATTAGAACTAACATAAATTGAAGTAGTTTCTCTAATGAATTTGGCAGCTGTCTCAGTCTATAAATGTTAATAAAGCTGGCCAAACAATGTCTATGCATGAATGGTTCCTCCTCATCAACCCTTTTGACCATCACTGATGCTACAGAAAGGATCTCGATGGATCAAAATGTCTGCTTGCAACTGTTAACAACCAAATCCAGAGTTGTTCATGATGATTATAAAAACTACAACTGTCCCTTGCAGTTGGATTCAAGTAATCATATCCTGATACTGTTGTTCTTGCAGGATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACT</genome_strand>
        <mrna_strand>AGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E232067" ref_strand="+" ref_description="SGN-E232067 [cLED-7-H7]">
      <seq>tttttgagatacatttttttttaattgtattcaaagtttagagcctggaaaaacacaatggagaaaatgagagaacaaaggtcaacttttacataatggagaaattgaaatgcatgtaacagagtatttaatttctcatctacaatttcactaagccattagaaacatcaagaggctttctgtctctttgtgcttttaagagttgcaatgaaaccatcatctgagtcttcttcagaagaatcatccttaagcttgcgtttctttgaccgctgcattgattccgtttttccagaatctggtgttttctttttctgtgttgatggcgtggttgacgaggatgttgtcttcttaatagtaacagactccgtggtctttttcacagtcacaaccgttttcagaggtgaaccaagctttagctgctgggccttcttttgtttcttctcaaaaactttcttcgccaagtcctttggaagcaaacctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="86609" stop="85529"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="86311" g_stop="85829" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="483" r_length="483" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E232067" ref_strand="+">
        <total_alignment_score>0.994</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E232067" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="86311" e_stop="85829"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTGAGATACATTTTTTTTTAATTGTATTCAAAGTTTAGAGCCTGGAAAAACACAATGGAGAAAATGAGAGAACAAAGGTCAACTTTTACATAATGGAGAAATTGAAATGCATGTAACAGAGTATTTAATTTCTCATCTACAATTTCACTAAGCCATTAGAAACATCAAGAGGCTTTCTGTCTCTTTGTGCTTTTAAGAGTTGCAATGAAACCATCATCTGAGTCTTCTTCAGAAGAATCATCCTTAAGCTTCCGTTTCTTTGACCGCTGCATTGATTCCGTTTTTCCAGAATCTGGTGTTTTCTTTTTCTGTGTTGATGGCGTGGTTGACGAGGATGTTGTCTTCTTAATAGTAACAGACTCCGTGGTCTTTTTCACAGTCACAACCGTTTTCAGAGGTGAACCAAGCTTTAGCTGCTGGGCCTTCTTTTGTTTCTTCTCAAAAACTTTCTTCGCCAAGTCCTTTGGAAGCAAACCTGAC</genome_strand>
        <mrna_strand>TTTTTGAGATACATTTTTTTTTAATTGTATTCAAAGTTTAGAGCCTGGAAAAACACAATGGAGAAAATGAGAGAACAAAGGTCAACTTTTACATAATGGAGAAATTGAAATGCATGTAACAGAGTATTTAATTTCTCATCTACAATTTCACTAAGCCATTAGAAACATCAAGAGGCTTTCTGTCTCTTTGTGCTTTTAAGAGTTGCAATGAAACCATCATCTGAGTCTTCTTCAGAAGAATCATCCTTAAGCTTGCGTTTCTTTGACCGCTGCATTGATTCCGTTTTTCCAGAATCTGGTGTTTTCTTTTTCTGTGTTGATGGCGTGGTTGACGAGGATGTTGTCTTCTTAATAGTAACAGACTCCGTGGTCTTTTTCACAGTCACAACCGTTTTCAGAGGTGAACCAAGCTTTAGCTGCTGGGCCTTCTTTTGTTTCTTCTCAAAAACTTTCTTCGCCAAGTCCTTTGGAAGCAAACCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E237492" ref_strand="+" ref_description="SGN-E237492 [cLED-19-E20]">
      <seq>tttttgagatacatttttttttaattgtattcaaagtttagagcctggaaaaacacaatggagaaaatgagagaacaaaggtcaacttttacataatggagaaattgaaatgcatgtaacagagtatttaatttctcatctacaatttcactaagccattagaaacatcaagaggctttctgtctctttgtgcttttaagagttgcaatgaaaccatcatctgagtcttcttcagaagaatcatccttaagcttccgtttctttgaccgctgcattgattccgtttttccagaatctggtgttttctttttctgtgttgatggcgtggttgacgaggatgttgtcttcttaatagtaacagactccgtggtctttttcacagtcacaaccgttttcagaggtgaaccaagctttagctgctgggccttcttttgtttcttctcaaaaactttcttcgccaagtcctttggaagcaaacctgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="86609" stop="85529"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="86311" g_stop="85829" g_length="483"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="483" r_length="483" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E237492" ref_strand="+">
        <total_alignment_score>0.996</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E237492" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="86311" e_stop="85829"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTGAGATACATTTTTTTTTAATTGTATTCAAAGTTTAGAGCCTGGAAAAACACAATGGAGAAAATGAGAGAACAAAGGTCAACTTTTACATAATGGAGAAATTGAAATGCATGTAACAGAGTATTTAATTTCTCATCTACAATTTCACTAAGCCATTAGAAACATCAAGAGGCTTTCTGTCTCTTTGTGCTTTTAAGAGTTGCAATGAAACCATCATCTGAGTCTTCTTCAGAAGAATCATCCTTAAGCTTCCGTTTCTTTGACCGCTGCATTGATTCCGTTTTTCCAGAATCTGGTGTTTTCTTTTTCTGTGTTGATGGCGTGGTTGACGAGGATGTTGTCTTCTTAATAGTAACAGACTCCGTGGTCTTTTTCACAGTCACAACCGTTTTCAGAGGTGAACCAAGCTTTAGCTGCTGGGCCTTCTTTTGTTTCTTCTCAAAAACTTTCTTCGCCAAGTCCTTTGGAAGCAAACCTGAC</genome_strand>
        <mrna_strand>TTTTTGAGATACATTTTTTTTTAATTGTATTCAAAGTTTAGAGCCTGGAAAAACACAATGGAGAAAATGAGAGAACAAAGGTCAACTTTTACATAATGGAGAAATTGAAATGCATGTAACAGAGTATTTAATTTCTCATCTACAATTTCACTAAGCCATTAGAAACATCAAGAGGCTTTCTGTCTCTTTGTGCTTTTAAGAGTTGCAATGAAACCATCATCTGAGTCTTCTTCAGAAGAATCATCCTTAAGCTTCCGTTTCTTTGACCGCTGCATTGATTCCGTTTTTCCAGAATCTGGTGTTTTCTTTTTCTGTGTTGATGGCGTGGTTGACGAGGATGTTGTCTTCTTAATAGTAACAGACTCCGTGGTCTTTTTCACAGTCACAACCGTTTTCAGAGGTGAACCAAGCTTTAGCTGCTGGGCCTTCTTTTGTTTCTTCTCAAAAACTTTCTTCGCCAAGTCCTTTGGAAGCAAACCTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E200845" ref_strand="+" ref_description="SGN-E200845 [cLEC-5-G3]">
      <seq>aaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaatttatacacttctgtgtatatagcgagataggcgagcgagaatggagagtggcgagcgagatttttgggagggagacgcctgacaaactttagctaacgtttgctatggagcacaattaaatcaaactctagctactccatttagttagattactag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="89262" stop="90292"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="89575" g_stop="89993" g_length="419"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="450" r_length="421" r_score="0.914"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E200845" ref_strand="+">
        <total_alignment_score>0.914</total_alignment_score>
        <cumulative_length_of_scored_exons>419</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E200845" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="89575" e_stop="89993"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATAGCAAGAAGATATATGTTTTTCTTTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTTCAATTGTATAATTCGCAATTGTATAATTCGTTGACCTTTTTCTCTGCAATACTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAACACGAAAATATATATTTTTGCATGTGTATACACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAA-TTATACACTTCTGTGTATAAAGCGAGAGAGGAGAGCGAGAATGGAGAGTGGCGAGCGAGATTTCTGGGAAAGAGACG-CTGGCAAATTTTAGCTAACGTTTGCTATGGAACACAATTAAATCAAAC-CTAGCTATTCCATTTATTTTAGGTTATTAA</genome_strand>
        <mrna_strand>TGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAATTTATACACTTCTGTGTATATAGCGAGATAGGCGAGCGAGAATGGAGAGTGGCGAGCGAGATTTTTGGGAGGGAGACGCCTGACAAACTTTAGCTAACGTTTGCTATGGAGCACAATTAAATCAAACTCTAGCTACTCCATTTA-GTTAGATTACTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E393076" ref_strand="+" ref_description="SGN-E393076 [TUS-37-J4]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaataaaaacagaatttatttttttttgtgtatatagcgagatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="89262" stop="90142"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="89575" g_stop="89868" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="325" r_length="295" r_score="0.915"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E393076" ref_strand="+">
        <total_alignment_score>0.915</total_alignment_score>
        <cumulative_length_of_scored_exons>294</cumulative_length_of_scored_exons>
        <coverage percentage="0.905" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="89575" e_stop="89868"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATAGCAAGAAGATATATGTTTTTCTTTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTTCAATTGTATAATTCGCAATTGTATAATTCGTTGACCTTTTTCTCTGCAATACTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAACACGAAAATATATATTTTTGCATGTGTATACACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAA-TTATACACTTCTGTGTATAAAGCGAGAGAG</genome_strand>
        <mrna_strand>TGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAAAAACAGAATTTATTTTTTTTTGTGTATATAGCGAGATAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E393075" ref_strand="+" ref_description="SGN-E393075 [TUS-37-J2]">
      <seq>taaaatgtatgtatattgcataattataagtgtatggcaagaatatatatgtttttgtctcgctttatacaaaaacaaaaacacaatatatacacttctgttgtataaagttagagaaaattgtatttcactgcaattatataattcacaattgtataattcgttggcctttttctctgcaatatttgaagtaaaatgtttgtaatttgtataattaagtgtataacacgaagatatatatttttacatgtgtatatacaattttctctcgctttatacaaaatagaaacagaggttttttttttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="89262" stop="90142"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="89575" g_stop="89852" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="308" r_length="278" r_score="0.914"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E393075" ref_strand="+">
        <total_alignment_score>0.914</total_alignment_score>
        <cumulative_length_of_scored_exons>278</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E393075" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="89575" e_stop="89852"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATAGCAAGAAGATATATGTTTTTCTTTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTTCAATTGTATAATTCGCAATTGTATAATTCGTTGACCTTTTTCTCTGCAATACTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAACACGAAAATATATATTTTTGCATGTGTATACACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAATTATACACTTCTGT</genome_strand>
        <mrna_strand>TGTATGGCAAGAATATATATGTTTTTGTCTCGCTTTATACAAAAACAAAAACACAATATATACACTTCTGTTGTATAAAGTTAGAGAAAATTGTATTTCACTGCAATTATATAATTCACAATTGTATAATTCGTTGGCCTTTTTCTCTGCAATATTTGAAGTAAAATGTTTGTAATTTGTATAATTAAGTGTATAACACGAAGATATATATTTTTACATGTGTATATACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAGGTTTTTTTTTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E545356" ref_strand="+" ref_description="SGN-E545356 [TUS-68-C15]">
      <seq>ttcagaaccgccgcaaaattcaacaagaatgaaaaacagcaagcagaacgaactgtgtgatttgtttcgtaatccatctaaagatgaaattgaagtagtaaaaattctactcgatctcgaaaatctagtgagagaaagacaatattgttcggtaatttggggttccaagaagaggagatctaatcgacgaatcgattcttcttcttctcccgtcgtcaactcatcaagtagttcgaaaatcgatggaaacgaaattgaacccaaaattaaagctgaagttactagccctgctagccctgctactcctctttcattttccccaagtgaatctgatgaaaaatccaaacattcttctcgcagaagctataaacgaaagacgagggaggagctaatggataaaataaaacaattatctcaatgcagagaatcgcttacaggggaagtggagaatgttcgtaattactacaataatcaaaaagcttacaatatgaagttgaaagcaatgaaagaagaggtaacaagaatggtgaatttccaagggggtggtgttaatttaggtcaactttactctaatcctggaatagagcccaatcgtcaacagccgttcattatggatcaggttgcttcaagatcagaagctattcatagatttcaatacccattgggccagctgcaacaggcccaacatttgtactcaaatgggttgggcccaggcccaatgggccttcctgatctgaatgttaaaggtggaagaggctttcgcattggaccagttcgatatcgatagaatgaatggtgaaaaggaaggcccnatatgctgaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="91173" stop="93421"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91473" g_stop="91848" g_length="376"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="376" r_length="376" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91849" i_stop="92202" i_length="354">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92203" g_stop="92265" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="377" r_stop="439" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92266" i_stop="92375" i_length="110">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92376" g_stop="92450" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="440" r_stop="514" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92451" i_stop="92812" i_length="362">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.979" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92813" g_stop="93121" g_length="309"/>
          <reference_exon_boundary r_type="cDNA" r_start="515" r_stop="825" r_length="311" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E545356" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E545356" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91473" e_stop="91848"/>
          <exon e_start="92203" e_stop="92265"/>
          <exon e_start="92376" e_stop="92450"/>
          <exon e_start="92813" e_stop="93121"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGAACCGCCGCAAAATTCAACAAGAATGAAAAACAGCAAGCAGAACGAACTGTGTGATTTGTTTCGTAATCCATCTAAAGATGAAATTGAAGTAGTAAAAATTCTACTCGATCTCGAAAATCTAGTGAGAGAAAGACAATATTGTTCGGTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAGGTACTATTCTCAACCCCCTCTCTCTCTTCTTCTTCTTCTTCATGAATTCATAATTGTTAATTGATTTTCAAAATTGCTTTCATCGATTTCGATATCTAATATCTTTTTCTCTCTCTAGTAACCAGTTTCAATGCCTACCCTATTTCGGATAATTTTTGTTTTATGACATTTTAAACTTCGTTACAACAACAACAACGAATATCACAATTATGAATAACATATGCAGTGAAATCTCAGATTATTTTTGAAAGATCTTTGGCTATGAATTTTAAATCTTGTTGCAAAAAAATTGTATGTTTATGATTGGGGATTTGGTGAATGATTTGAGTTTTAAAATTGTTGATTGGTTTGCAGACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGGGTAAGTTTGTAAATTCCTTCAACATAAATTTAGTTTTTTTTTTTTCAATTTTCTTTTCCTAAATTATCCTCTGTCTTTTTTTTTTAATTGATTTAATGGAATTTGTACAGGAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAGCAATGAAAGAAGAGGTAAATATTCATCTCTATTTTTGGTAAAAATCTTTATTATTTTCTCATTTTTTTGAGATTTGTGATCGTGGTTGCGTAATTTGTTCACAAAATTGATCATTTGCTACACTAATCAAATGAAAGAACGTTTTAATTTAACTCGTGATAGCATATTATTATTCTATTTTTGAAGTTTTATTATTAGCTTACGACAAAAAGTGTATAATTTAACTCGTGATGGCATATTATTACTCTAGTTTTTGAGGTTCGCATATTAGTTTATGTCAAAAAGTGTAAAATGATAACTTAATTAATATTTTTTTTAAGTTTGCTTGTTAGCAATCAGGTTAACAACCTTCTTCCGTATCGTTAATTAAATACAGGTAACAAGAATGGTGAATTTCCAAGGGGGTGGTGTTAATTTAGGTCAACTTTACTCTAATCCTGGAATAGAGCCCAATCGTCAACAGCCGTTCATTATGGATCAGGTTGCTTCAAGATCAGAAGCTATTCATAGATTTCAATACCCATTGGGCCAGCTGCAACAGGCCCAACATTTGTACTCAAATGGGTTGGGCCCAGGCCCAATGGGCCTTCCTGATCTGAATGTT-AAGGTGGAAGAGGCTTTCGCATTGGACCAGTTCGATATCGATAGAATGAATGTTG-AAAGGAAGGCCCAATATGCTGAAGCT</genome_strand>
        <mrna_strand>TTCAGAACCGCCGCAAAATTCAACAAGAATGAAAAACAGCAAGCAGAACGAACTGTGTGATTTGTTTCGTAATCCATCTAAAGATGAAATTGAAGTAGTAAAAATTCTACTCGATCTCGAAAATCTAGTGAGAGAAAGACAATATTGTTCGGTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAG..................................................................................................................................................................................................................................................................................................................................................................ACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGG..............................................................................................................GAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAGCAATGAAAGAAGAG..........................................................................................................................................................................................................................................................................................................................................................................GTAACAAGAATGGTGAATTTCCAAGGGGGTGGTGTTAATTTAGGTCAACTTTACTCTAATCCTGGAATAGAGCCCAATCGTCAACAGCCGTTCATTATGGATCAGGTTGCTTCAAGATCAGAAGCTATTCATAGATTTCAATACCCATTGGGCCAGCTGCAACAGGCCCAACATTTGTACTCAAATGGGTTGGGCCCAGGCCCAATGGGCCTTCCTGATCTGAATGTTAAAGGTGGAAGAGGCTTTCGCATTGGACCAGTTCGATATCGATAGAATGAATGGTGAAAAGGAAGGCCCNATATGCTGAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E309811" ref_strand="+" ref_description="SGN-E309811 [cLEZ-10-K9]">
      <seq>tcagaaccgccgcaaaattcaacaagaatgaaaaacagcaagcacaacgaactgtgtgatttgtttcgtaatccatctaaagatgaaattgaagtagtaaaaattctactcgatctcgaaaatctagtgagagaaagacaatattgctcggtaatttggggttccaagaagaggagatctaatcgacgaatcgattcttcttcttctcccgtcgtcaactcatcaagtagatcgaaaatcgatggaaacgaaattgaacccaaaattaaagctgaagttactagccctgctagccctgctactcctctttcattttccccaagcgaatctgatgaaaaatacaaacattcttctcgcagaagctataaacgaaagacgagggaggagctaatggataaaataaaacaattatctcaatgcagagaatcgcttacaggggaagtggagaatgttcgtaattactacaataatcaaaacgcttacaatatgaagttgaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="91174" stop="92736"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91474" g_stop="91848" g_length="375"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="375" r_length="375" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91849" i_stop="92202" i_length="354">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92203" g_stop="92265" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="376" r_stop="438" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92266" i_stop="92375" i_length="110">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92376" g_stop="92436" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="439" r_stop="499" r_length="61" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E309811" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E309811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91474" e_stop="91848"/>
          <exon e_start="92203" e_stop="92265"/>
          <exon e_start="92376" e_stop="92436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGAACCGCCGCAAAATTCAACAAGAATGAAAAACAGCAAGCAGAACGAACTGTGTGATTTGTTTCGTAATCCATCTAAAGATGAAATTGAAGTAGTAAAAATTCTACTCGATCTCGAAAATCTAGTGAGAGAAAGACAATATTGTTCGGTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAGGTACTATTCTCAACCCCCTCTCTCTCTTCTTCTTCTTCTTCATGAATTCATAATTGTTAATTGATTTTCAAAATTGCTTTCATCGATTTCGATATCTAATATCTTTTTCTCTCTCTAGTAACCAGTTTCAATGCCTACCCTATTTCGGATAATTTTTGTTTTATGACATTTTAAACTTCGTTACAACAACAACAACGAATATCACAATTATGAATAACATATGCAGTGAAATCTCAGATTATTTTTGAAAGATCTTTGGCTATGAATTTTAAATCTTGTTGCAAAAAAATTGTATGTTTATGATTGGGGATTTGGTGAATGATTTGAGTTTTAAAATTGTTGATTGGTTTGCAGACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGGGTAAGTTTGTAAATTCCTTCAACATAAATTTAGTTTTTTTTTTTTCAATTTTCTTTTCCTAAATTATCCTCTGTCTTTTTTTTTTAATTGATTTAATGGAATTTGTACAGGAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAG</genome_strand>
        <mrna_strand>TCAGAACCGCCGCAAAATTCAACAAGAATGAAAAACAGCAAGCACAACGAACTGTGTGATTTGTTTCGTAATCCATCTAAAGATGAAATTGAAGTAGTAAAAATTCTACTCGATCTCGAAAATCTAGTGAGAGAAAGACAATATTGCTCGGTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGATCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGCGAATCTGATGAAAAATACAAACATTCTTCTCGCAGAAGCTATAAACGAAAG..................................................................................................................................................................................................................................................................................................................................................................ACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGG..............................................................................................................GAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAACGCTTACAATATGAAGTTGAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E321354" ref_strand="+" ref_description="SGN-E321354 [cTOB-23-F20]">
      <seq>gtaatttggggttccaagaagaggagatctaatcgacgaatcgattcttcttcttctcccgtcgtcaactcatcaagtagttcgaaaatcgatggaaacgaaattgaacccaaaattaaagctgaagttactagccctgctagccctgctactcctctttcattttccccaagtgaatctgatgaaaaatccaaacattcttctcgcagaagctataaacgaaagacgagggaggagctaatggataaaataaaacaattatctcaatgcagagaatcgcttacaggggaagtggagaatgttcgtaattactacaataatcaaaaagcttacaatatgaagttgaaagcaatgaaagaagaggtaacaagaatggtgaatttccaagggggtggtgttaatttaggtcaactttactctaatcctggaatagagcccaatcgtcaacagccgttcattatggatcaggttgcttcaagatcagaagctattcatagatttcaatacccattgggccagctgcaacaggcccaacatttgtactcaaatgggttgggcccaggcccaatgggccttcctgatctgaatgttaaggtggaagaggctttcgcattggaccagttcgatatcgatagaaatgatgttgaaaggaagcccaatatgctgaagctagaaggaagaggaggattaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="91324" stop="93446"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="91624" g_stop="91848" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="225" r_length="225" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="91849" i_stop="92202" i_length="354">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="92203" g_stop="92265" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="288" r_length="63" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="92266" i_stop="92375" i_length="110">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="92376" g_stop="92450" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="289" r_stop="363" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="92451" i_stop="92812" i_length="362">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.979" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="92813" g_stop="93145" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="364" r_stop="695" r_length="332" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E321354" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E321354" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="91624" e_stop="91848"/>
          <exon e_start="92203" e_stop="92265"/>
          <exon e_start="92376" e_stop="92450"/>
          <exon e_start="92813" e_stop="93145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAGGTACTATTCTCAACCCCCTCTCTCTCTTCTTCTTCTTCTTCATGAATTCATAATTGTTAATTGATTTTCAAAATTGCTTTCATCGATTTCGATATCTAATATCTTTTTCTCTCTCTAGTAACCAGTTTCAATGCCTACCCTATTTCGGATAATTTTTGTTTTATGACATTTTAAACTTCGTTACAACAACAACAACGAATATCACAATTATGAATAACATATGCAGTGAAATCTCAGATTATTTTTGAAAGATCTTTGGCTATGAATTTTAAATCTTGTTGCAAAAAAATTGTATGTTTATGATTGGGGATTTGGTGAATGATTTGAGTTTTAAAATTGTTGATTGGTTTGCAGACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGGGTAAGTTTGTAAATTCCTTCAACATAAATTTAGTTTTTTTTTTTTCAATTTTCTTTTCCTAAATTATCCTCTGTCTTTTTTTTTTAATTGATTTAATGGAATTTGTACAGGAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAGCAATGAAAGAAGAGGTAAATATTCATCTCTATTTTTGGTAAAAATCTTTATTATTTTCTCATTTTTTTGAGATTTGTGATCGTGGTTGCGTAATTTGTTCACAAAATTGATCATTTGCTACACTAATCAAATGAAAGAACGTTTTAATTTAACTCGTGATAGCATATTATTATTCTATTTTTGAAGTTTTATTATTAGCTTACGACAAAAAGTGTATAATTTAACTCGTGATGGCATATTATTACTCTAGTTTTTGAGGTTCGCATATTAGTTTATGTCAAAAAGTGTAAAATGATAACTTAATTAATATTTTTTTTAAGTTTGCTTGTTAGCAATCAGGTTAACAACCTTCTTCCGTATCGTTAATTAAATACAGGTAACAAGAATGGTGAATTTCCAAGGGGGTGGTGTTAATTTAGGTCAACTTTACTCTAATCCTGGAATAGAGCCCAATCGTCAACAGCCGTTCATTATGGATCAGGTTGCTTCAAGATCAGAAGCTATTCATAGATTTCAATACCCATTGGGCCAGCTGCAACAGGCCCAACATTTGTACTCAAATGGGTTGGGCCCAGGCCCAATGGGCCTTCCTGATCTGAATGTTAAGGTGGAAGAGGCTTTCGCATTGGACCAGTTCGATATCGATAGAATGAATGTTGAAAGGAAGGCCCAATATGCTGAAGCTAGAAGGAAGAGGAGGATTAAAAGA</genome_strand>
        <mrna_strand>GTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAG..................................................................................................................................................................................................................................................................................................................................................................ACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGG..............................................................................................................GAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAGCAATGAAAGAAGAG..........................................................................................................................................................................................................................................................................................................................................................................GTAACAAGAATGGTGAATTTCCAAGGGGGTGGTGTTAATTTAGGTCAACTTTACTCTAATCCTGGAATAGAGCCCAATCGTCAACAGCCGTTCATTATGGATCAGGTTGCTTCAAGATCAGAAGCTATTCATAGATTTCAATACCCATTGGGCCAGCTGCAACAGGCCCAACATTTGTACTCAAATGGGTTGGGCCCAGGCCCAATGGGCCTTCCTGATCTGAATGTTAAGGTGGAAGAGGCTTTCGCATTGGACCAGTTCGATATCGATAGAAATGATGTTGAAAGGAA-GCCCAATATGCTGAAGCTAGAAGGAAGAGGAGGATTAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E705148" ref_strand="+" ref_description="SGN-E705148 [FA26BC03]">
      <seq>cgattaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaatttggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgntatgtttcctattgtctttctctcatttgaactgtgtttgggttgttgagaaatgaaatgtcttttattggtctatatgaatatactgtataacagtagctttctgtaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96208" stop="94594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95908" g_stop="95832" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="77" r_length="77" r_score="0.987"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="94897" g_length="848"/>
          <reference_exon_boundary r_type="cDNA" r_start="78" r_stop="924" r_length="847" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="927" polyA_stop="947"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E705148" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>925</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95908" e_stop="95832"/>
          <exon e_start="95744" e_stop="94897"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAA-TTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTC-TTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</genome_strand>
        <mrna_strand>CGATTAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGNTATGTTTCCTATTGTCTTTCTC-TCATTTGAAC--TGTGTTTGGGTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATAACAGTAGCTTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E218522" ref_strand="+" ref_description="SGN-E218522 [cLEL-18-C8](-)">
      <seq>gtgtgatatcccaccaactgggctaagatggcatccacgtttgtggaaattcaacctccatcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctatatgcatatactgtattacagtagcttcttgtaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95650" stop="94594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95350" g_stop="94897" g_length="454"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="451" r_length="451" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="454" polyA_stop="470"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E218522" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>454</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E218522" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95350" e_stop="94897"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</genome_strand>
        <mrna_strand>GTGTGATATCCCACCAACTGGGCT-AAGATGGCATCCACGTTTG-TGGAAATTCAACCTCCA-TCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGCATATACTGTATTACAGTAGCTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E225964" ref_strand="+" ref_description="SGN-E225964 [cLEL-31-K20](-)">
      <seq>gcatccacgtttgttggaaattcaacctccatcaggaaatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgttcccaattgtcttctcttcatttgaactttgtgtttggtttgttaaaaaatgaaatgtcttttattggtctatacgaatatactgtattacagtagcttcttgtaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95619" stop="94594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95319" g_stop="94897" g_length="423"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="422" r_length="422" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="425" polyA_stop="442"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E225964" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>423</cumulative_length_of_scored_exons>
        <coverage percentage="0.957" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E225964" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95319" e_stop="94897"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</genome_strand>
        <mrna_strand>GCATCCACGTTTGTTGGAAATTCAACCTCCA-TCAGGAAATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTCCCAATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTAAAAAATGAAATGTCTTTTATTGGTCTATACGAATATACTGTATTACAGTAGCTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E218945" ref_strand="+" ref_description="SGN-E218945 [cLEL-18-C8](-)">
      <seq>catgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctatatgaatatactgtattacagtagcttcttgtaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95467" stop="94594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95167" g_stop="94897" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="271" r_length="271" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="274" polyA_stop="291"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E218945" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>271</cumulative_length_of_scored_exons>
        <coverage percentage="0.931" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E218945" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95167" e_stop="94897"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</genome_strand>
        <mrna_strand>CATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E745045" ref_strand="+" ref_description="SGN-E745045 [GI|77963734]">
      <seq>ggctctttcccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctatatgaatatactgtattacagtaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97851" stop="94604"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97553" g_stop="97044" g_length="510"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="510" r_length="510" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="511" r_stop="780" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="94904" g_length="841"/>
          <reference_exon_boundary r_type="cDNA" r_start="781" r_stop="1621" r_length="841" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1622" polyA_stop="1656"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E745045" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>1621</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E745045" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97553" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="94904"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTA</genome_strand>
        <mrna_strand>GGCTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E746802" ref_strand="+" ref_description="SGN-E746802 [GI|47104480]">
      <seq>ctctttcccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctatatgaatatactgtattacagtaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97851" stop="94604"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97551" g_stop="97044" g_length="508"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="508" r_length="508" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="509" r_stop="778" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="94904" g_length="841"/>
          <reference_exon_boundary r_type="cDNA" r_start="779" r_stop="1619" r_length="841" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1620" polyA_stop="1633"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E746802" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1619</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E746802" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97551" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="94904"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTA</genome_strand>
        <mrna_strand>CTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277539" ref_strand="+" ref_description="SGN-E277539 [cLER-6-C19]">
      <seq>ttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95684" stop="94617"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95384" g_stop="94917" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E277539" ref_strand="+">
        <total_alignment_score>0.989</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95384" e_stop="94917"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATA</genome_strand>
        <mrna_strand>TTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E716152" ref_strand="+" ref_description="SGN-E716152 [FB16BA08]">
      <seq>aagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactgtgtttggtttgttgagaaatgaaatgtcttttattggtctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95820" stop="94619"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95520" g_stop="94918" g_length="603"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="601" r_length="601" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E716152" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E716152" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95520" e_stop="94918"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATAT</genome_strand>
        <mrna_strand>AAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAAC--TGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E716198" ref_strand="+" ref_description="SGN-E716198 [FB16BE11]">
      <seq>aagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactgtgtttggtttgttgagaaatgaaatgtcttttattggtctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95820" stop="94619"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95520" g_stop="94918" g_length="603"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="601" r_length="601" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E716198" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>603</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E716198" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95520" e_stop="94918"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATAT</genome_strand>
        <mrna_strand>AAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAAC--TGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E578190" ref_strand="+" ref_description="SGN-E578190 [LE12AD04]">
      <seq>tttttttttagaccaataaaagacatttcatttctcaacaaaccaaacacagttcaaatgaagagaagacaataggaaacataacaagttcacttggcagaaattgaacaaaccaacaatatatcaaatgtagagaagtttttaggattggtattgatcatcagcaacctcatcatcatcatactcttcctcatcatctgctgtagcatcctggtattgttgatattctgcaaccaaatcattcatgttgctctcggcttcagtgaactccatttcatccattccttcacctgtgtaccaatgcaagaaagccttgcgcctgaacatggcagtaaactgctcactcacccttctaaacatctcctgaatggaggttgaattgccaacaaacgtggatgccatcttcagcccagttggtgggatatcacacacactagacttgacattgttagggatccattcaacaaagtaggacgagttcttgttctgcacattgatcatctgttcatctacctcctttgtgctcatcttacccctaaacatggcagaagctgtcaggtaacgtccatgacggggatctgccgcgcacatcatgttcttggcatcccacatttgttgagtaagctctggcactgttagcgatatgtattgctgagatccacgagaggttagtggggcatatcccaccatgaagaagtgaagacgtgggaagggaattaaattcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="94619" stop="95947"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94919" g_stop="95647" g_length="729"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="727" r_length="727" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E578190" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E578190" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94919" e_stop="95647"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATTCATATAGACCAATAAAAGACATTTCATTTCTCAACAAACCAAACACAAAGTTCAAATGAAGAGAAGACAATAGGAAACATAACAAGTTCACTTGGCAGAAATTGAACAAACCAACAATATATCAAATGTAGAGAAGTTTTTAGGATTGGTATTGATCATCAGCAACCTCATCATCATCATACTCTTCCTCATCATCTGCTGTAGCATCCTGGTATTGTTGATATTCTGCAACCAAATCATTCATGTTGCTCTCGGCTTCAGTGAACTCCATTTCATCCATTCCTTCACCTGTGTACCAATGCAAGAAAGCCTTGCGCCTGAACATGGCAGTAAACTGCTCACTCACCCTTCTAAACATCTCCTGAATGGAGGTTGAATTTCCAACAAACGTGGATGCCATCTTCAGCCCAGTTGGTGGGATATCACACACACTAGACTTGACATTGTTAGGGATCCATTCAACAAAGTAGGACGAGTTCTTGTTCTGCACATTGATCATCTGTTCATCTACCTCCTTTGTGCTCATCTTACCCCTAAACATGGCAGAAGCTGTCAGGTAACGTCCATGACGGGGATCTGCCGCGCACATCATGTTCTTGGCATCCCACATTTGTTGAGTAAGCTCTGGCACTGTTAGCGATATGTATTGCTGTGATCCACGAGAGGTTAGTGGGGCAAATCCCACCATGAAGAAGTGAAGACGTGGGAAGGGAATTAAATTCACA</genome_strand>
        <mrna_strand>TTTTTTTTTAGACCAATAAAAGACATTTCATTTCTCAACAAACCAAACAC--AGTTCAAATGAAGAGAAGACAATAGGAAACATAACAAGTTCACTTGGCAGAAATTGAACAAACCAACAATATATCAAATGTAGAGAAGTTTTTAGGATTGGTATTGATCATCAGCAACCTCATCATCATCATACTCTTCCTCATCATCTGCTGTAGCATCCTGGTATTGTTGATATTCTGCAACCAAATCATTCATGTTGCTCTCGGCTTCAGTGAACTCCATTTCATCCATTCCTTCACCTGTGTACCAATGCAAGAAAGCCTTGCGCCTGAACATGGCAGTAAACTGCTCACTCACCCTTCTAAACATCTCCTGAATGGAGGTTGAATTGCCAACAAACGTGGATGCCATCTTCAGCCCAGTTGGTGGGATATCACACACACTAGACTTGACATTGTTAGGGATCCATTCAACAAAGTAGGACGAGTTCTTGTTCTGCACATTGATCATCTGTTCATCTACCTCCTTTGTGCTCATCTTACCCCTAAACATGGCAGAAGCTGTCAGGTAACGTCCATGACGGGGATCTGCCGCGCACATCATGTTCTTGGCATCCCACATTTGTTGAGTAAGCTCTGGCACTGTTAGCGATATGTATTGCTGAGATCCACGAGAGGTTAGTGGGGCATATCCCACCATGAAGAAGTGAAGACGTGGGAAGGGAATTAAATTCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268063" ref_strand="+" ref_description="SGN-E268063 [cLEI-15-F2]">
      <seq>tatagaccaataaaagacatttcatttctcaacaaaccaaacacaaagttcaaatgaagagaagacaataggaaacataacaagttcacttggcagaaattgaacaaaccaacaatatatcaaatgtatagaagttcttaggattggtattgatcatcatcaacctcattatcatcatactctttctcatcatctgctgtaacgtactggtattgttgatattctgcaaccaaatcattcatgttgctctcggcttgagagaactccatttcattcattccttcacctgtgtgccaatgcaagaaagcctagcgcctgaacatggcagtgaactgctcactcacccttctaaacatctcctgaatggaggttgaatttccaacaaacgtggatgccattttcagcccacttggggggata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="+" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="94625" stop="95644"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94925" g_stop="95344" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="+" ref_id="SGN-E268063" ref_strand="+">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>420</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E268063" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94925" e_stop="95344"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATAGACCAATAAAAGACATTTCATTTCTCAACAAACCAAACACAAAGTTCAAATGAAGAGAAGACAATAGGAAACATAACAAGTTCACTTGGCAGAAATTGAACAAACCAACAATATATCAAATGTAGAGAAGTTTTTAGGATTGGTATTGATCATCAGCAACCTCATCATCATCATACTCTTCCTCATCATCTGCTGTAGCATCCTGGTATTGTTGATATTCTGCAACCAAATCATTCATGTTGCTCTCGGCTTCAGTGAACTCCATTTCATCCATTCCTTCACCTGTGTACCAATGCAAGAAAGCCTTGCGCCTGAACATGGCAGTAAACTGCTCACTCACCCTTCTAAACATCTCCTGAATGGAGGTTGAATTTCCAACAAACGTGGATGCCATCTTCAGCCCAGTTGGTGGGATA</genome_strand>
        <mrna_strand>TATAGACCAATAAAAGACATTTCATTTCTCAACAAACCAAACACAAAGTTCAAATGAAGAGAAGACAATAGGAAACATAACAAGTTCACTTGGCAGAAATTGAACAAACCAACAATATATCAAATGTATAGAAGTTCTTAGGATTGGTATTGATCATCATCAACCTCATTATCATCATACTCTTTCTCATCATCTGCTGTAACGTACTGGTATTGTTGATATTCTGCAACCAAATCATTCATGTTGCTCTCGGCTTGAGAGAACTCCATTTCATTCATTCCTTCACCTGTGTGCCAATGCAAGAAAGCCTAGCGCCTGAACATGGCAGTGAACTGCTCACTCACCCTTCTAAACATCTCCTGAATGGAGGTTGAATTTCCAACAAACGTGGATGCCATTTTCAGCCCACTTGGGGGGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E693956" ref_strand="+" ref_description="SGN-E693956 [LH_Ea02K18](-)">
      <seq>atttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgtgcggcagatccccgtcatggacgttacctgacagcttttgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcaaaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtttagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctctattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctagaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttccaaaggtcttctcttcatttgaactttgtntttggtttcttaaaaggggaaatgtcttttattggtctaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96029" stop="94617"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95729" g_stop="94928" g_length="802"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="802" r_length="802" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="803" polyA_stop="824"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E693956" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>802</cumulative_length_of_scored_exons>
        <coverage percentage="0.973" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E693956" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95729" e_stop="94928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</genome_strand>
        <mrna_strand>ATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGTGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTTTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAAAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTTTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCTATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAGAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCAAAGGTCTTCTCTTCATTTGAACTTTGTNTTTGGTTTCTTAAAAGGGGAAATGTCTTTTATTGGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E228976" ref_strand="+" ref_description="SGN-E228976 [cLEL-29-J13](-)">
      <seq>gttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95607" stop="94617"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95307" g_stop="94928" g_length="380"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="380" r_length="380" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="381" polyA_stop="398"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E228976" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>380</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E228976" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95307" e_stop="94928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</genome_strand>
        <mrna_strand>GTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E228880" ref_strand="+" ref_description="SGN-E228880 [cLEL-29-J13](-)">
      <seq>tgtttagaagggtgagtgagcagttttctgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttctctgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctccagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacctgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgttgagaaatgaaatgtcttttattggtctcccaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95579" stop="94628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95279" g_stop="94928" g_length="352"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="352" r_length="352" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="356" polyA_stop="370"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E228880" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>352</cumulative_length_of_scored_exons>
        <coverage percentage="0.951" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E228880" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95279" e_stop="94928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</genome_strand>
        <mrna_strand>TGTTTAGAAGGGTGAGTGAGCAGTTTTCTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCTCTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTCCAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACCTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E232292" ref_strand="+" ref_description="SGN-E232292 [cLEL-5-E19](-)">
      <seq>tgtttaaaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggataaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatattgttggtttgttcaatttctgccaagtgaacttgttatgtttcctattgtcttctcttcatttgaactttgtgtttggtttgctgagaaatgaaatgtcttttattggtctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="95579" stop="94617"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95279" g_stop="94928" g_length="352"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="352" r_length="352" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="353" polyA_stop="369"/>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E232292" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>352</cumulative_length_of_scored_exons>
        <coverage percentage="0.954" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E232292" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95279" e_stop="94928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCT</genome_strand>
        <mrna_strand>TGTTTAAAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATAAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGCTGAGAAATGAAATGTCTTTTATTGGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E690116" ref_strand="+" ref_description="SGN-E690116 [LH_Ea02K18]">
      <seq>tgatttgatctctgcaaccatgagtggtgttactatgctgcttgagattccctggtcagctgaactcggacctgaggaaattggctgtgaatttaattcccttcccacgttcttcacttcttcatggagggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccaaagcttactcaacaaatgtgggatgccaagaacatgatgcgtgcggcagatccccgtcatggacgttacctgacagcttctgccatggttaggggtactatgaccacaaaggaggtagatgaacagatgatcaatgtgcaaaacaagaactcgacctactttgttgaatggatccctaacaatgccaagtctagcgcgtgtgatatcccaccaactgggctgaagatggcatccacgtgtgttggcaattcaacctctattcaggacatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattgggacacaggtgaaggaatggatgaaatggagttcactgaagccgacagcaacatgaatgatttggttgcataatatcaacaataccaggatgctacagcatatgatgaggaagaatatgatgatgatgaggttgctgatgatcaataccaatcctagaaacttctctacattagatatattgacggcctgttcaatttctgccgagtgaacttgacatgttacctattgacttctcttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96029" stop="94680"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95731" g_stop="94980" g_length="752"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="754" r_length="754" r_score="0.945"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E690116" ref_strand="+">
        <total_alignment_score>0.945</total_alignment_score>
        <cumulative_length_of_scored_exons>752</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E690116" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95731" e_stop="94980"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTGATCTCTGCAACCATGAGTGGTGTTACT-TGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACG-TCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTC</genome_strand>
        <mrna_strand>TGATTTGATCTCTGCAACCATGAGTGGTGTTACTATGCTGCTTGAGATTCCCTGGTCAGCTGAACTCGGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTTCTTCACTTCTTCATGGAGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAAAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGCGTGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGGTTAGGGGTACTATGACCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAAAACAAGAACTCGACCTACTTTGTTGAATGGATCCCTAACAATGCCAAGTCTAGCGCGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTGTGTTGGCAATTCAACCTCTATTCAGGACATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGGACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGACAGCAACATGAATGATTTGGTTGCATAATATCAACAATACCAGGATGCTACAGCATATGATGAGGAAGAATATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAGAAACTTCTCTACATTAGATATATTGACGGCCTGTTCAATTTCTGCCGAGTGAACTTGACATGTTACCTATTGACTTCTCTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E261442" ref_strand="+" ref_description="SGN-E261442 [cLEG-57-D20]">
      <seq>tgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctacagcagatgatgaggaagagtatgatgatgatgaggttgctgatgatcaataccaatcctaaaaacttctctacatttgatatatttgttggtttgttcaatttctgccaagtgaacttgttatgtttcctatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96152" stop="94691"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95852" g_stop="95832" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="94991" g_length="754"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="776" r_length="755" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E261442" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>775</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E261442" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95852" e_stop="95832"/>
          <exon e_start="95744" e_stop="94991"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATA-TTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATT</genome_strand>
        <mrna_strand>TGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728556" ref_strand="+" ref_description="SGN-E728556 [LA18AG12]">
      <seq>gcaatactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaggaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgcagaatatcaacaataccaggatgctaccgcagatgatgagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96354" stop="94808"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96054" g_stop="95832" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="223" r_length="223" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95108" g_length="637"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="860" r_length="637" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E728556" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>860</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728556" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96054" e_stop="95832"/>
          <exon e_start="95744" e_stop="95108"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGA</genome_strand>
        <mrna_strand>GCAATACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACCGCAGATGATGAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E702081" ref_strand="+" ref_description="SGN-E702081 [FA17DA05]">
      <seq>ggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcangagatgtttagaagggtgagtgagcagtttactgccatgttcangcgcaaggctttcttgcattggtacacaggtgaangaatggatgaaatggagttcactgaagccgagagcaacatgaatgatttggttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97413" stop="94850"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97113" g_stop="97044" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="70" r_length="70" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="340" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95150" g_length="595"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="935" r_length="595" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E702081" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>935</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E702081" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97113" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95150"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGC</genome_strand>
        <mrna_strand>GGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCANGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCANGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAANGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E262849" ref_strand="+" ref_description="SGN-E262849 [cLEG-59-O7]">
      <seq>tccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattggtacacaggtgaaagaatggatgaaatggagttcactgaagcccgagagcacatgaatgattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96319" stop="94856"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96019" g_stop="95832" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="188" r_length="188" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95156" g_length="589"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="777" r_length="589" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E262849" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>777</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E262849" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96019" e_stop="95832"/>
          <exon e_start="95744" e_stop="95156"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAG-CCGAGAGCAACATGAATGATTT</genome_strand>
        <mrna_strand>TCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAAGAATGGATGAAATGGAGTTCACTGAAGCCCGAGAGC-ACATGAATGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E311159" ref_strand="+" ref_description="SGN-E311159 [cLEZ-16-F22]">
      <seq>atttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgttcaggcgcaaggctttcttgcattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96029" stop="94919"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95729" g_stop="95219" g_length="511"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="511" r_length="511" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E311159" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>511</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E311159" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95729" e_stop="95219"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTG</genome_strand>
        <mrna_strand>ATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E256555" ref_strand="+" ref_description="SGN-E256555 [cLEG-38-E18]">
      <seq>tgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggaaattcaacctccattcaggagatgtttagaagggtgagtgagcagtttactgccatgtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96152" stop="94943"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95852" g_stop="95832" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95243" g_length="502"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="523" r_length="502" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E256555" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E256555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95852" e_stop="95832"/>
          <exon e_start="95744" e_stop="95243"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTT</genome_strand>
        <mrna_strand>TGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E357963" ref_strand="+" ref_description="SGN-E357963 [cLHT-32-E11]">
      <seq>gaaccatacaatgctacactgtcggtgcaccaattagtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacatgttgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgcccctctaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggacgtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccccaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggcatccacgtttgttggcaattcaacctccattcacgagatgtttacaagggtgagtgagcagtttactgccatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96255" stop="94944"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95955" g_stop="95832" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="124" r_length="124" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95244" g_length="501"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="625" r_length="501" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E357963" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>625</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E357963" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95955" e_stop="95832"/>
          <exon e_start="95744" e_stop="95244"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGT</genome_strand>
        <mrna_strand>GAACCATACAATGCTACACTGTCGGTGCACCAATTAGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACATGTTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCTCTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGACGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCCAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGCAATTCAACCTCCATTCACGAGATGTTTACAAGGGTGAGTGAGCAGTTTACTGCCATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257055" ref_strand="+" ref_description="SGN-E257055 [cLEG-44-O22]">
      <seq>tgaagctcactactccaagttttggtgacttgaaccatcagatctctgcaaccatgagtggtgttactcgctgtttgagattccctgatcagctgaactcagacctcaagaaattggctgtgaatataattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagcgccggagcttactcaacaaatgtgggatgccaagaacatgatgcgcgcggcagatccccgtcatggacgctacctgacagcttctgccatgtttatgggttagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatcccaccaactgggctgaagatggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96152" stop="95017"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95852" g_stop="95832" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.00"/>
            <acceptor a_prob="0.861" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95317" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="449" r_length="428" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E257055" ref_strand="+">
        <total_alignment_score>0.970</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257055" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95852" e_stop="95832"/>
          <exon e_start="95744" e_stop="95317"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCA</genome_strand>
        <mrna_strand>TGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATCAGATCTCTGCAACCATGAGTGGTGTTACTCGCTGTTTGAGATTCCCTGATCAGCTGAACTCAGACCTCAAGAAATTGGCTGTGAATATAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGCGCCGGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGCGCGCGGCAGATCCCCGTCATGGACGCTACCTGACAGCTTCTGCCATGTTTATGGGTTAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698494" ref_strand="+" ref_description="SGN-E698494 [FA06CB07]">
      <seq>agaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgatatccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97364" stop="95038"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97064" g_stop="97044" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="291" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95338" g_length="407"/>
          <reference_exon_boundary r_type="cDNA" r_start="292" r_stop="698" r_length="407" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E698494" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>698</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698494" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97064" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95338"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCA</genome_strand>
        <mrna_strand>AGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E363472" ref_strand="+" ref_description="SGN-E363472 [cLPP-4-D5]">
      <seq>atgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96206" stop="95043"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95906" g_stop="95832" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="75" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95343" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="477" r_length="402" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E363472" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E363472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95906" e_stop="95832"/>
          <exon e_start="95744" e_stop="95343"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATA</genome_strand>
        <mrna_strand>ATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257899" ref_strand="+" ref_description="SGN-E257899 [cLEG-39-J16]">
      <seq>tgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctagtgtgtgtgata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96152" stop="95043"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95852" g_stop="95832" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="21" r_length="21" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95343" g_length="402"/>
          <reference_exon_boundary r_type="cDNA" r_start="22" r_stop="423" r_length="402" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E257899" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>423</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257899" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95852" e_stop="95832"/>
          <exon e_start="95744" e_stop="95343"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATA</genome_strand>
        <mrna_strand>TGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266858" ref_strand="+" ref_description="SGN-E266858 [cLEI-7-J14]">
      <seq>ccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatcaatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgtcaagtctag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96318" stop="95054"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96018" g_stop="95832" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="187" r_length="187" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95354" g_length="391"/>
          <reference_exon_boundary r_type="cDNA" r_start="188" r_stop="578" r_length="391" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E266858" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>578</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E266858" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96018" e_stop="95832"/>
          <exon e_start="95744" e_stop="95354"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAG</genome_strand>
        <mrna_strand>CCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698631" ref_strand="+" ref_description="SGN-E698631 [FA07AD06]">
      <seq>cacgctgagttgattgatgctgttctagatgttgttcgtaaaccaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttacgggtaagatgagcacaaaggaggtagatgaacagatgatccatgtgcagaacaagaactcgtcctactttgttgaatggatccctaacaatgccaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97411" stop="95058"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97113" g_stop="97044" g_length="70"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="0.929"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.94"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="341" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95358" g_length="387"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="728" r_length="387" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E698631" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>727</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698631" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97113" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95358"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAA-GAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGT</genome_strand>
        <mrna_strand>CACGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAACCAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTACGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCCATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGCCAAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290955" ref_strand="+" ref_description="SGN-E290955 [cLET-8-G22]">
      <seq>cgaagctgtatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaaggaggtagatgaacagatgatca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96184" stop="95115"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95884" g_stop="95832" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.98"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95415" g_length="330"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="383" r_length="330" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E290955" ref_strand="+">
        <total_alignment_score>0.997</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95884" e_stop="95832"/>
          <exon e_start="95744" e_stop="95415"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCA</genome_strand>
        <mrna_strand>CGAAGCTGTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E311932" ref_strand="+" ref_description="SGN-E311932 [cTOA-16-A13]">
      <seq>tccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacctatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaagatgagcacaaagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96319" stop="95135"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96019" g_stop="95832" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="188" r_length="188" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95435" g_length="310"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="498" r_length="310" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E311932" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>498</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E311932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96019" e_stop="95832"/>
          <exon e_start="95744" e_stop="95435"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGA</genome_strand>
        <mrna_strand>TCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACCTATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E244475" ref_strand="+" ref_description="SGN-E244475 [cLEF-3-L3]">
      <seq>ggaattcggcacgaggatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggatgccaagaacatgatgtgcgcggcagatccccgtcatggacgttacctgacagcttctgccatgtttaggggtaaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96343" stop="95148"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96060" g_stop="95832" g_length="229"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="227" r_length="227" r_score="0.965"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95448" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="228" r_stop="524" r_length="297" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E244475" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E244475" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96060" e_stop="95832"/>
          <exon e_start="95744" e_stop="95448"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGA</genome_strand>
        <mrna_strand>GGAATTCG-GCACGA-GGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E703591" ref_strand="+" ref_description="SGN-E703591 [FA21DG01]">
      <seq>gggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatatcgctaacagtgccagagcttactcaacaaatgtgggat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97685" stop="95224"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97385" g_stop="97044" g_length="342"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="342" r_length="342" r_score="0.997"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="343" r_stop="612" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95524" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="613" r_stop="833" r_length="221" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E703591" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>833</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E703591" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97385" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95524"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGAT</genome_strand>
        <mrna_strand>GGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E707832" ref_strand="+" ref_description="SGN-E707832 [FA34AD06]">
      <seq>cgctcgaggttcttcttctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgcccactaacctctcgtggatcacagcaatacatatcgctaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97804" stop="95256"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97512" g_stop="97044" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="470" r_length="470" r_score="0.972"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="740" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95556" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="741" r_stop="928" r_length="188" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E707832" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>928</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E707832" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97512" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95556"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTC-TTCTTCTTCTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAA</genome_strand>
        <mrna_strand>CGCTCGAGGTTCTTCTT-CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTG-CCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E267115" ref_strand="+" ref_description="SGN-E267115 [cLEI-4-P13]">
      <seq>gattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgccccactaacctctcgtggatcacagcaatacatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96401" stop="95262"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="270" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95562" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="271" r_stop="453" r_length="183" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E267115" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E267115" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95562"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATAT</genome_strand>
        <mrna_strand>GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E727386" ref_strand="+" ref_description="SGN-E727386 [LA14CB12]">
      <seq>cgcttcttcattctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagaccctgagaaattggctgtgaattaaatccctttccacgtcttcacttcttcatggtgggatttgcccactaacctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97805" stop="95284"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97507" g_stop="97044" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="465" r_length="465" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="735" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95584" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="736" r_stop="894" r_length="159" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E727386" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>895</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727386" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97507" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95584"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTTCTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCT</genome_strand>
        <mrna_strand>CGCTTCTTCATTCTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCCTGAGAAATTGGCTGTGAA-TTAAATCCCTTTCCACGTCTTCACTTCTTCATGGTGGGATTTG-CCCACTAACCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698843" ref_strand="+" ref_description="SGN-E698843 [FA07DB01]">
      <seq>tggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcacacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgcccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97504" stop="95293"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97204" g_stop="97044" g_length="161"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="161" r_length="161" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="431" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95593" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="432" r_stop="583" r_length="152" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E698843" ref_strand="+">
        <total_alignment_score>0.997</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698843" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97204" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95593"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCA</genome_strand>
        <mrna_strand>TGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCACACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E704153" ref_strand="+" ref_description="SGN-E704153 [FA23CA03]">
      <seq>atcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaattcccttcccacgtcttcacttcttcatggtgggatttgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97779" stop="95296"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97479" g_stop="97044" g_length="436"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="437" r_length="437" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="438" r_stop="707" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95596" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="708" r_stop="856" r_length="149" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E704153" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>855</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E704153" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97479" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95596"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCC</genome_strand>
        <mrna_strand>ATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E701951" ref_strand="+" ref_description="SGN-E701951 [FA17BF02]">
      <seq>ctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatttaatcccttcccacgtcttcacttcttcatggtgggatttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97794" stop="95298"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97495" g_stop="97044" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="454" r_stop="723" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95598" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="869" r_length="146" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E701951" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>869</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E701951" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97495" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95598"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTG</genome_strand>
        <mrna_strand>CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAA-TCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729439" ref_strand="+" ref_description="SGN-E729439 [LA21AC08]">
      <seq>ctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcaaacctgaggaaattggctgtgaatttaattcccttccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97794" stop="95327"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97495" g_stop="97044" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="454" r_stop="723" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95627" g_length="118"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="841" r_length="118" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E729439" ref_strand="+">
        <total_alignment_score>0.992</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729439" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97495" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95627"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCC</genome_strand>
        <mrna_strand>CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAAACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E708622" ref_strand="+" ref_description="SGN-E708622 [FA36BB02]">
      <seq>cttctctctcatttctctcatcaaattttttttatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgactttgaaccatttgatctctgcaaccatgaatggtgttacttgctgtttgagattccccggtcaactgaactcaaacctgaggaaattggctgtgaattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97794" stop="95339"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97499" g_stop="97044" g_length="456"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="456" r_length="456" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="457" r_stop="726" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95639" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="727" r_stop="833" r_length="107" r_score="0.943"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E708622" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>832</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E708622" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97499" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95639"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGAC-TTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTT</genome_strand>
        <mrna_strand>CTT-CTCTCTCATTTCTCTCATCAAATTTTTTTTATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTTGAACCATTTGATCTCTGCAACCATGAATGGTGTTACTTGCTGTTTGAGATTCCCCGGTCAACTGAACTCAAACCTGAGGAAATTGGCTGTGAATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E731722" ref_strand="+" ref_description="SGN-E731722 [LA28AA05]">
      <seq>ctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcaactgaactcagacctgaggaaattggctgtgaatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97794" stop="95340"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97495" g_stop="97044" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="454" r_stop="723" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95640" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="828" r_length="105" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E731722" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>827</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731722" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97495" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95640"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATT</genome_strand>
        <mrna_strand>CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAACTGAACTCAGACCTGAGGAAATTGGCTGTGAATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E247424" ref_strand="+" ref_description="SGN-E247424 [cLEF-46-L6]">
      <seq>tttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97470" stop="95366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97170" g_stop="97044" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="127" r_length="127" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="128" r_stop="397" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95666" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="398" r_stop="476" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E247424" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E247424" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97170" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95666"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTC</genome_strand>
        <mrna_strand>TTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268367" ref_strand="+" ref_description="SGN-E268367 [cLEI-13-A18]">
      <seq>ttgttcgtaaagaagcggagaattgtgattgcttgcggggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttgagattccctggtcagctgaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97382" stop="95366"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97082" g_stop="97044" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="39" r_length="39" r_score="0.949"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="309" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95666" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="310" r_stop="388" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E268367" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97082" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95666"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTC</genome_strand>
        <mrna_strand>TTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCGGG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E726621" ref_strand="+" ref_description="SGN-E726621 [LA12BD12]">
      <seq>atttctcccttcatcttcatctcatctcttcttcttcttctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgctgtttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97828" stop="95389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97538" g_stop="97044" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="493" r_stop="762" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95689" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="763" r_stop="818" r_length="56" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E726621" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E726621" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97538" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTG</genome_strand>
        <mrna_strand>ATTTC-TC-CCTTCATCTTCATC-TCATCTCTTCTTCTTCTT-CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E702164" ref_strand="+" ref_description="SGN-E702164 [FA17DH07]">
      <seq>atttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttcaagctcactactcccagttttggtgacttgaaccatttgatctctgcaaccatgagtggtgttacttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97788" stop="95395"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97488" g_stop="97044" g_length="445"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="446" r_length="446" r_score="0.991"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="447" r_stop="716" r_length="270" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.96"/>
            <acceptor a_prob="0.861" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95695" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="717" r_stop="766" r_length="50" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E702164" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>765</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E702164" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97488" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95695"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGC</genome_strand>
        <mrna_strand>ATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTCAAGCTCACTACTCCCAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E333605" ref_strand="+" ref_description="SGN-E333605 [cTOD-22-B7]">
      <seq>ttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatctctgcaaccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97769" stop="95410"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97469" g_stop="97044" g_length="426"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="426" r_length="426" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="696" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95710" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="697" r_stop="731" r_length="35" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E333605" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>731</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E333605" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97469" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95710"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCTGCAACCATG</genome_strand>
        <mrna_strand>TTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATCTCTGCAACCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E700424" ref_strand="+" ref_description="SGN-E700424 [FA13AD02]">
      <seq>cccttctctctcatttcactcatcaaaattttttcatcaaaaaaacctaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggaaaatgccgatgaatgtatggtcccttgacaccaaaactctatatgatatttgtttcaaaaactttgaagctcactactccaagttttggtgaacttgaaccatttgatctctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97799" stop="95418"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97500" g_stop="97044" g_length="457"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="459" r_length="459" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="731" r_length="272" r_score="0.967"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.92"/>
            <acceptor a_prob="0.861" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95718" g_length="27"/>
          <reference_exon_boundary r_type="cDNA" r_start="732" r_stop="759" r_length="28" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E700424" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>754</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E700424" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97500" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95718"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAA-CTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGT-CCTTGACAACGAAGCTCTATATGATATTTGTTTC-AGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTG-ACTTGAACCATTTGATCTCTG</genome_strand>
        <mrna_strand>CCCTTCTCTCTCATTTCACTCATCAAAATTTTTTCATCAAAAAAACCTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAAAATGCCGATGAATGTATGGTCCCTTGACACCAAAACTCTATATGATATTTGTTTCAAAAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGAACTTGAACCATTTGATCTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E704542" ref_strand="+" ref_description="SGN-E704542 [FA24CC12]">
      <seq>cgtatttctcccttcatcttcatctcatctcttcttcttcttctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcaaaactttgaagctcactactccaagttttggggacttgaaccatttgatctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97828" stop="95419"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97541" g_stop="97044" g_length="498"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.970"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="496" r_stop="765" r_length="270" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="0.98"/>
            <acceptor a_prob="0.861" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95744" g_stop="95719" g_length="26"/>
          <reference_exon_boundary r_type="cDNA" r_start="766" r_stop="791" r_length="26" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E704542" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>794</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E704542" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97541" e_stop="97044"/>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95719"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATC-AATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATCTCT</genome_strand>
        <mrna_strand>CGTATTTC-TC-CCTTCATCTTCATCT-CATCTCTTCTTCTTCTT-CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAAAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGGGACTTGAACCATTTGATCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E367799" ref_strand="+" ref_description="SGN-E367799 [cLPT-14-J8]">
      <seq>ttgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaagagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatatttgtttcagaactttgaagctcactactccaagttttggtgacttgaaccatttgatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="96409" stop="95422"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="96101" g_stop="95832" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="281" r_length="270" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87">
            <donor d_prob="0.478" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95744" g_stop="95722" g_length="23"/>
          <reference_exon_boundary r_type="cDNA" r_start="282" r_stop="304" r_length="23" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E367799" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>293</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E367799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="96101" e_stop="95832"/>
          <exon e_start="95744" e_stop="95722"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTTGTAAGTGTTTCTCTTTAGTGGTAACCAATAATATGATCTGCAAGTTTAAGTAAGCAAATGATTAATTTTGCCTATTTTCTCGTGTAGTTGGTGACTTGAACCATTTGATC</genome_strand>
        <mrna_strand>GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAAGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT.......................................................................................TTGGTGACTTGAACCATTTGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340977" ref_strand="+" ref_description="SGN-E340977 [cTOF-5-F15]">
      <seq>ttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacacntgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatgatattttgtttcagaactttgaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97807" stop="95546"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97507" g_stop="97044" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="464" r_length="464" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95846" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="465" r_stop="722" r_length="258" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E340977" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>720</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340977" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97507" e_stop="97044"/>
          <exon e_start="96101" e_stop="95846"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACAC-TGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATA-TTTGTTTCAGAACTTTGAAGCT</genome_strand>
        <mrna_strand>TTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACNTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTTGTTTCAGAACTTTGAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E317785" ref_strand="+" ref_description="SGN-E317785 [cTOA-30-G24]">
      <seq>ccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaacatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacacgaagctctatatgatatttgtttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97844" stop="95560"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97544" g_stop="97044" g_length="501"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="501" r_length="501" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95860" g_length="242"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="741" r_length="240" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E317785" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>743</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E317785" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97544" e_stop="97044"/>
          <exon e_start="96101" e_stop="95860"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTC</genome_strand>
        <mrna_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAA-CATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGAC-ACGAAGCTCTATATGATATTTGTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340628" ref_strand="+" ref_description="SGN-E340628 [cTOF-1-I20]">
      <seq>ttcctctcaccaatttttttcatcaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccatcggacgttacaaaggaaccgtcgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacgaagctctatatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97787" stop="95570"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97487" g_stop="97044" g_length="444"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95870" g_length="232"/>
          <reference_exon_boundary r_type="cDNA" r_start="444" r_stop="675" r_length="232" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E340628" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>676</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340628" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97487" e_stop="97044"/>
          <exon e_start="96101" e_stop="95870"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGA</genome_strand>
        <mrna_strand>TTCCTCTCACCAATTTTTTTCATC-AAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCATCGGACGTTACAAAGGAACCGTCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329945" ref_strand="+" ref_description="SGN-E329945 [cTOD-5-I10]">
      <seq>agaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgacaacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97751" stop="95583"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97451" g_stop="97044" g_length="408"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="408" r_length="408" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95883" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="409" r_stop="627" r_length="219" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E329945" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E329945" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97451" e_stop="97044"/>
          <exon e_start="96101" e_stop="95883"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACG</genome_strand>
        <mrna_strand>AGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E345341" ref_strand="+" ref_description="SGN-E345341 [cTOF-13-G11]">
      <seq>tcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacnactgtcggtgcaccaattggtggagaatgccgatgaatgtatggtccttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97809" stop="95587"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97509" g_stop="97044" g_length="466"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="466" r_length="466" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95887" g_length="215"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="682" r_length="216" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E345341" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>681</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345341" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97509" e_stop="97044"/>
          <exon e_start="96101" e_stop="95887"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTAC-ACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGAC</genome_strand>
        <mrna_strand>TCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACNACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342191" ref_strand="+" ref_description="SGN-E342191 [cTOF-10-F8]">
      <seq>catttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcngtgcaccaattggtggagaatgccgatgaatgtatggtccttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97843" stop="95589"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97543" g_stop="97044" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95889" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="501" r_stop="713" r_length="213" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E342191" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>713</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342191" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97543" e_stop="97044"/>
          <exon e_start="96101" e_stop="95889"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTG</genome_strand>
        <mrna_strand>CATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCNGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E362903" ref_strand="+" ref_description="SGN-E362903 [cLPP-2-N20]">
      <seq>ttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaagagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaattggtggagaatgccgatgaatgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97773" stop="95598"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97473" g_stop="97044" g_length="430"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="430" r_length="430" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95898" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="431" r_stop="634" r_length="204" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E362903" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>634</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E362903" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97473" e_stop="97044"/>
          <exon e_start="96101" e_stop="95898"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTA</genome_strand>
        <mrna_strand>TTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAAGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698957" ref_strand="+" ref_description="SGN-E698957 [FA08AE05]">
      <seq>ccttcttcttctctctcatttctctcatcaaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgctcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaacccatacaatgctacactgtcggcgcaccaattggtggacaatgccga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97805" stop="95606"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97506" g_stop="97044" g_length="463"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="463" r_length="463" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="95906" g_length="196"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="660" r_length="197" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E698957" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97506" e_stop="97044"/>
          <exon e_start="96101" e_stop="95906"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTTCTTATTCTCTCATTCCTCTCATCA-ATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAA-CCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGA</genome_strand>
        <mrna_strand>CCTTCTTCTT-CTCTCTCATTTCTCTCATCAAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGCTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCCATACAATGCTACACTGTCGGCGCACCAATTGGTGGACAATGCCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295347" ref_strand="+" ref_description="SGN-E295347 [cLET-20-P22]">
      <seq>ggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgtagaaccatacaatgctacactgtcggtgcaccaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97710" stop="95622"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97410" g_stop="97044" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="367" r_length="367" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95922" g_length="180"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="547" r_length="180" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E295347" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295347" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97410" e_stop="97044"/>
          <exon e_start="96101" e_stop="95922"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAAT</genome_strand>
        <mrna_strand>GGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698451" ref_strand="+" ref_description="SGN-E698451 [FA06BD12]">
      <seq>tcattaccactagaaatatcactctctttcccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttccccttctccaaaggtgtctgacactgttgtagaaccatacaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97874" stop="95642"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97574" g_stop="97044" g_length="531"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="531" r_length="531" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95942" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="532" r_stop="692" r_length="161" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E698451" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>691</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698451" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97574" e_stop="97044"/>
          <exon e_start="96101" e_stop="95942"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTACCACTAGAAATATCACTCTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTT-CCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGC</genome_strand>
        <mrna_strand>TCATTACCACTAGAAATATCACTCTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E267447" ref_strand="+" ref_description="SGN-E267447 [cLEI-8-O18]">
      <seq>tctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacactgttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97783" stop="95656"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97483" g_stop="97044" g_length="440"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="440" r_length="440" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95956" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="586" r_length="146" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E267447" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E267447" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97483" e_stop="97044"/>
          <exon e_start="96101" e_stop="95956"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTA</genome_strand>
        <mrna_strand>TCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E336130" ref_strand="+" ref_description="SGN-E336130 [cTOE-12-G3]">
      <seq>ccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttctccaaaggtgtctgacact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97844" stop="95662"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97544" g_stop="97044" g_length="501"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="501" r_length="501" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95962" g_length="140"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="641" r_length="140" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E336130" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>641</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E336130" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97544" e_stop="97044"/>
          <exon e_start="96101" e_stop="95962"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACT</genome_strand>
        <mrna_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E320934" ref_strand="+" ref_description="SGN-E320934 [cTOB-13-C4]">
      <seq>catttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctctgttttcccttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97843" stop="95680"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97543" g_stop="97044" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95980" g_length="122"/>
          <reference_exon_boundary r_type="cDNA" r_start="501" r_stop="622" r_length="122" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E320934" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>622</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320934" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97543" e_stop="97044"/>
          <exon e_start="96101" e_stop="95980"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCT</genome_strand>
        <mrna_strand>CATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327347" ref_strand="+" ref_description="SGN-E327347 [cTOC-19-N4]">
      <seq>tcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgattttccaggtaagggaggagtatccagacaggatgatgctcacattctctgttttccctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97814" stop="95682"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97514" g_stop="97044" g_length="471"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="471" r_length="471" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95982" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="591" r_length="120" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E327347" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327347" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97514" e_stop="97044"/>
          <exon e_start="96101" e_stop="95982"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTT</genome_strand>
        <mrna_strand>TCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTTCCAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329158" ref_strand="+" ref_description="SGN-E329158 [cTOD-2-G8]">
      <seq>ttcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctcacattctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97787" stop="95692"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97487" g_stop="97044" g_length="444"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="444" r_length="444" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95992" g_length="110"/>
          <reference_exon_boundary r_type="cDNA" r_start="445" r_stop="554" r_length="110" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E329158" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E329158" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97487" e_stop="97044"/>
          <exon e_start="96101" e_stop="95992"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCT</genome_strand>
        <mrna_strand>TTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E361160" ref_strand="+" ref_description="SGN-E361160 [cLPP-13-P9]">
      <seq>tttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaagagtatccagacaggatgatgctcacattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97772" stop="95694"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97472" g_stop="97044" g_length="429"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="429" r_length="429" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="95994" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="430" r_stop="537" r_length="108" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E361160" ref_strand="+">
        <total_alignment_score>0.994</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E361160" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97472" e_stop="97044"/>
          <exon e_start="96101" e_stop="95994"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCT</genome_strand>
        <mrna_strand>TTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAAGAGTATCCAGACAGGATGATGCTCACATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E270458" ref_strand="+" ref_description="SGN-E270458 [cLEM-1-P17]">
      <seq>caaatcggttccaaattctgggaagttatctgtgatgaacacggagttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttaaacttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatatgtatcagatctggtccctatggacagatcttccgtcctgataacttcgtctttggacagtctggtgctggtcataactgggccaaaggtcattatactgaaggcgctgagtggattgatgctggtctacatgttgatcgcaaagaagcggagaatagcgattgcttgcaaggattccaggatcgccactcacttggtggagggactggatctggcatgggaacactactgatgtgcaaggttagggaggagtatccagacaggatgatgctcaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97704" stop="95698"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97404" g_stop="97044" g_length="361"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="362" r_length="362" r_score="0.961"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.88"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="95998" g_length="104"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="466" r_length="104" r_score="0.952"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E270458" ref_strand="+">
        <total_alignment_score>0.959</total_alignment_score>
        <cumulative_length_of_scored_exons>465</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270458" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97404" e_stop="97044"/>
          <exon e_start="96101" e_stop="95998"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATA-GTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACA</genome_strand>
        <mrna_strand>CAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGAGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTAAACTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATATGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTCGTCTTTGGACAGTCTGGTGCTGGTCATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTGGATTGATGCTGGTCTACATGTTGATCGCAAAGAAGCGGAGAATAGCGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGATCGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATGTGCAAGGTTAGGGAGGAGTATCCAGACAGGATGATGCTCACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E336132" ref_strand="+" ref_description="SGN-E336132 [cTOE-12-G7]">
      <seq>ccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97844" stop="95701"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97544" g_stop="97044" g_length="501"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="501" r_length="501" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96001" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="602" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E336132" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>602</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E336132" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97544" e_stop="97044"/>
          <exon e_start="96101" e_stop="96001"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTC</genome_strand>
        <mrna_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266277" ref_strand="+" ref_description="SGN-E266277 [cLEI-3-L3]">
      <seq>tctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttccaaggtaagggaggagtatccagacaggatgatgctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97783" stop="95701"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97483" g_stop="97044" g_length="440"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="440" r_length="440" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96001" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="541" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E266277" 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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E266277" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97483" e_stop="97044"/>
          <exon e_start="96101" e_stop="96001"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTC</genome_strand>
        <mrna_strand>TCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E331639" ref_strand="+" ref_description="SGN-E331639 [cTOD-7-M23]">
      <seq>aaactaatagaaaatgagagaaattcttcacattcaaggaggacagtgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgacgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97759" stop="95738"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97459" g_stop="97044" g_length="416"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="416" r_length="416" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96038" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="417" r_stop="480" r_length="64" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E331639" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>480</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E331639" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97459" e_stop="97044"/>
          <exon e_start="96101" e_stop="96038"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTC</genome_strand>
        <mrna_strand>AAACTAATAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAGTGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGACGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E321036" ref_strand="+" ref_description="SGN-E321036 [cTOB-13-F16]">
      <seq>tttcccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97848" stop="95739"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97548" g_stop="97044" g_length="505"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="505" r_length="505" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96039" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="506" r_stop="568" r_length="63" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E321036" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>568</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321036" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97548" e_stop="97044"/>
          <exon e_start="96101" e_stop="96039"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTT</genome_strand>
        <mrna_strand>TTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E313236" ref_strand="+" ref_description="SGN-E313236 [cTOA-18-M23]">
      <seq>cacattcagggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttgagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacactgtggaggttgtaattgctgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactgattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97731" stop="95739"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97431" g_stop="97044" g_length="388"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="388" r_length="388" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96039" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="389" r_stop="451" r_length="63" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E313236" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>451</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E313236" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97431" e_stop="97044"/>
          <exon e_start="96101" e_stop="96039"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTT</genome_strand>
        <mrna_strand>CACATTCAGGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTGAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACACTGTGGAGGTTGTAATTGCTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E310068" ref_strand="+" ref_description="SGN-E310068 [cLEZ-8-G22]">
      <seq>tctttcccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggaaggactggatctggcatgggaacactactgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97850" stop="95740"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97550" g_stop="97044" g_length="507"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="507" r_length="507" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96040" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="508" r_stop="569" r_length="62" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E310068" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>569</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310068" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97550" e_stop="97044"/>
          <exon e_start="96101" e_stop="96040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATT</genome_strand>
        <mrna_strand>TCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAAGGACTGGATCTGGCATGGGAACACTACTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E331640" ref_strand="+" ref_description="SGN-E331640 [cTOD-7-O1]">
      <seq>aaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggaaggactggatctggcatgggaacactactgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97759" stop="95740"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97459" g_stop="97044" g_length="416"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="416" r_length="416" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96040" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="417" r_stop="478" r_length="62" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E331640" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E331640" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97459" e_stop="97044"/>
          <exon e_start="96101" e_stop="96040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATT</genome_strand>
        <mrna_strand>AAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAAGGACTGGATCTGGCATGGGAACACTACTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E313891" ref_strand="+" ref_description="SGN-E313891 [cTOA-17-D12]">
      <seq>agaaattcttcacattcaaggaggacgtggtggttaccaaatcggctccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggatttcaggtttgccactcacttggtggagggactggatctggcatgggaacactactgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97741" stop="95740"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97441" g_stop="97044" g_length="398"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="398" r_length="398" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96040" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="399" r_stop="460" r_length="62" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E313891" ref_strand="+">
        <total_alignment_score>0.985</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E313891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97441" e_stop="97044"/>
          <exon e_start="96101" e_stop="96040"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATT</genome_strand>
        <mrna_strand>AGAAATTCTTCACATTCAAGGAGGACGTGGTGGTTACCAAATCGGCTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTTCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E248511" ref_strand="+" ref_description="SGN-E248511 [cLEF-59-F11]">
      <seq>ctcatcaattttttcacaaaaaaactaagagaaaatgagagggatccttggcattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctactggacgttacaaaggaactgccgctgagtccgatcttcaacttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggctgtgcttatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtgtttggacagtctggtgctgggaataactgggcgaaaggtcattatactgaaggcgctgagttgatcgatgctgttctcgatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgtcactcacttggtggagggactggatctggcatgggaacactactga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97782" stop="95742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97482" g_stop="97044" g_length="439"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="437" r_length="437" r_score="0.954"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96042" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="438" r_stop="497" r_length="60" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E248511" ref_strand="+">
        <total_alignment_score>0.958</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E248511" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97482" e_stop="97044"/>
          <exon e_start="96101" e_stop="96042"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</genome_strand>
        <mrna_strand>CTCATCAA-TTTTTTCA-CAAAAAAACTAAGAGAAAATGAGAGGGATCCTTGGCATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACTGGACGTTACAAAGGAACTGCCGCTGAGTCCGATCTTCAACTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCTGTGCTTATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTGTTTGGACAGTCTGGTGCTGGGAATAACTGGGCGAAAGGTCATTATACTGAAGGCGCTGAGTTGATCGATGCTGTTCTCGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGTCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E304800" ref_strand="+" ref_description="SGN-E304800 [cLEX-10-K10]">
      <seq>tcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaagcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgggaacactactga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97778" stop="95742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97478" g_stop="97044" g_length="435"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="435" r_length="435" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96042" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="436" r_stop="495" r_length="60" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E304800" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E304800" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97478" e_stop="97044"/>
          <exon e_start="96101" e_stop="96042"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</genome_strand>
        <mrna_strand>TCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAAGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E310723" ref_strand="+" ref_description="SGN-E310723 [cLEZ-15-C22]">
      <seq>ttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgctctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttgtggagggactggatctggcatgggaacactactga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97771" stop="95742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97471" g_stop="97044" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.98"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96042" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="429" r_stop="487" r_length="59" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E310723" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>488</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310723" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97471" e_stop="97044"/>
          <exon e_start="96101" e_stop="96042"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</genome_strand>
        <mrna_strand>TTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGCTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTT-GTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293932" ref_strand="+" ref_description="SGN-E293932 [cLET-13-K4]">
      <seq>tttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggcatgtgaacactactga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97770" stop="95742"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97470" g_stop="97044" g_length="427"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96042" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="428" r_stop="487" r_length="60" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E293932" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293932" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97470" e_stop="97044"/>
          <exon e_start="96101" e_stop="96042"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGA</genome_strand>
        <mrna_strand>TTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGTGAACACTACTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E307378" ref_strand="+" ref_description="SGN-E307378 [cLEY-12-G23]">
      <seq>tttttcatcaaaaaaactaaaataaaatgagagaatttgttaacatttaaggaggacaccgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagctggaacgtatcaatgtttatttcaatgaagcttatggtggacgttatgttcctagggcggttttgatggatctagagcctgttactatggatagtatcagatctggtccctatggacagatcttacgtgctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggttattatactgaaggcgctgagttgattgatgctgctctagatgttgatcgtaaagaagcgtagaattgcgattgcttgcaaggattccaggtttgccactcacttggtggaaggactggatctggcatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97772" stop="95753"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97472" g_stop="97044" g_length="429"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="429" r_length="429" r_score="0.956"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="0.92"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96053" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="430" r_stop="478" r_length="49" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E307378" ref_strand="+">
        <total_alignment_score>0.956</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E307378" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97472" e_stop="97044"/>
          <exon e_start="96101" e_stop="96053"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGG</genome_strand>
        <mrna_strand>TTTTTCATCAAAAAAACTAAAATAAAATGAGAGAATTTGTTAACATTTAAGGAGGACACCGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTGGAACGTATCAATGTTTATTTCAATGAAGCTTATGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGTTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTACGTGCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTTATTATACTGAAGGCGCTGAGTTGATTGATGCTGCTCTAGATGTTGATCGTAAAGAAGCGTAGAATTGCGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAAGGACTGGATCTGGCATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E306971" ref_strand="+" ref_description="SGN-E306971 [cLEY-11-H1]">
      <seq>catcttcatcttcatctcttcttcttcttattctctcatgcctctcatgaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgccactcacttggtggagggactggatctggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97825" stop="95757"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97525" g_stop="97044" g_length="482"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="482" r_length="482" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" 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="96101" g_stop="96057" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="483" r_stop="527" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E306971" ref_strand="+">
        <total_alignment_score>0.996</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E306971" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97525" e_stop="97044"/>
          <exon e_start="96101" e_stop="96057"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCA</genome_strand>
        <mrna_strand>CATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATGCCTCTCATGAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E344390" ref_strand="+" ref_description="SGN-E344390 [cTOF-14-A15]">
      <seq>ttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgcaaggattccaggtttgcccctcacttgggggagggac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97807" stop="95768"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97507" g_stop="97044" g_length="464"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="464" r_length="464" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942">
            <donor d_prob="0.853" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="96101" g_stop="96068" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="465" r_stop="498" r_length="34" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E344390" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>498</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344390" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97507" e_stop="97044"/>
          <exon e_start="96101" e_stop="96068"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAGGTTTTGTTCATTTCCTCTATGAATGTGCCTGTTGCCTTTAGTTTCTGTTTTCGTTTTTATTGCGGATTGCTTGCTTATTCTTCCGATTGGTAGTTCACACTGCATATATTAGATCTCTTTCTTATTGTCATTCCAAAATCCTATGCTAATTTGCCCGATGTATGAGTTCATAGTTGACAGTGCCTTTAGTTTCTGTTTTCGATTTTATTGCTAATTGCGTACTGATTCTTCCTATTGGTAGTTAACAAGTGCCAATACTAGATCTCTTCCTCATTTTCATTTCAAATCCTATGCTAATTGGTCCGATGTATGTGCTTATAGTCGATATAACCTAGATGTAACCGAATTTGATCTTGTTTTATTTTGTTTAATGCTTGTTTGTTGTTTCTATGAATGTACCTATGGTAGCACAGTTGGTCATATACAGGTCTCTTTTACTCATTCGTAATCGTATGCTCTATGATGAAAATGCCTATATTTGCTGTTAACAACTTGTCTGACTCAGGGTAGAAATAATGCTGATGCATATGTGCACATTTGAATGTTCATATAAAGCCTGAATCTCATAGAGCACACACATGAGTGGCATAAAATTGTATAGTCTAGCAGAAGGATAAATTTAACTTTCTCATCATGCATCTCACAAGAATTCATACTCTCTTAGAGTGCATGATCGAGTACTGAGATTTATGATGTGTCTGGATCTTACTTATGGTAATACTAGTCAATCGTCGTGTGTTTCTTTTCCTTATACTCTTGGAAATTTATCTAAGATCTTATTTATATTGTTTCTGTCTTGAAATTTCTGGACAGTGATATTATCTAATTGAATACTTTTATGTCTAATGCATCTATTTGTGACCCTCTTTATACACAATTATTACCATTTGTTGATTGAGGGGTGGTAGTTGATTGTTTTGTATTCTTTGTTTTATGGATCAGGATTCCAGGTTTGCCACTCACTTGGTGGAGGGAC</genome_strand>
        <mrna_strand>TTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GATTCCAGGTTTGCCCCTCACTTGGGGGAGGGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293299" ref_strand="+" ref_description="SGN-E293299 [cLET-18-F17]">
      <seq>ccgggctgtaggttcatcttcatcttcatcttcatcgcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctgctccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaagcggagaattgtgattgcttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97833" stop="96747"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97545" g_stop="97047" g_length="499"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="499" r_length="499" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E293299" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>499</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293299" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97545" e_stop="97047"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGC</genome_strand>
        <mrna_strand>CCGGGCTGTAGGTTCATCTTCATCTTCATCTTCATCGCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGCTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E301139" ref_strand="+" ref_description="SGN-E301139 [cLEW-22-E24]">
      <seq>ccatttctcccttcatcttcatcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaagaaacggagaattgtgatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97844" stop="96753"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97544" g_stop="97053" g_length="492"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="492" r_length="492" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E301139" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E301139" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97544" e_stop="97053"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATT</genome_strand>
        <mrna_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAACGGAGAATTGTGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E360715" ref_strand="+" ref_description="SGN-E360715 [cLPP-7-P14]">
      <seq>ttcatctcttcttcttcttctctctcattctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggctttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97815" stop="96771"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97515" g_stop="97071" g_length="445"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E360715" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>445</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E360715" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97515" e_stop="97071"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAG</genome_strand>
        <mrna_strand>TTCATCTCTTCTTCTTCTT-CTCTCTCATT-CTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGCTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E323612" ref_strand="+" ref_description="SGN-E323612 [cTOC-2-F22]">
      <seq>aaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatgttgttcgtaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97761" stop="96771"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97461" g_stop="97071" g_length="391"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="391" r_length="391" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E323612" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323612" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97461" e_stop="97071"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAG</genome_strand>
        <mrna_strand>AAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E364679" ref_strand="+" ref_description="SGN-E364679 [cLPP-18-N19]">
      <seq>aaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctggtctagatgttgttcgtaaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97760" stop="96771"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97460" g_stop="97071" g_length="390"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="390" r_length="390" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E364679" ref_strand="+">
        <total_alignment_score>0.992</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E364679" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97460" e_stop="97071"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAG</genome_strand>
        <mrna_strand>AAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGGTCTAGATGTTGTTCGTAAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E245090" ref_strand="+" ref_description="SGN-E245090 [cLEF-13-J23]">
      <seq>atcttcatcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtacgatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgctgttctagatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97824" stop="96783"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97524" g_stop="97083" g_length="442"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="442" r_length="442" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E245090" ref_strand="+">
        <total_alignment_score>1.000</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="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E245090" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97524" e_stop="97083"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATG</genome_strand>
        <mrna_strand>ATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E361603" ref_strand="+" ref_description="SGN-E361603 [cLPP-6-N12]">
      <seq>cttcttctctctcattctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagtctggtgctggtaataactgggccaaaggtcattatactgaaggcgctgagttgattgatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97802" stop="96794"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97502" g_stop="97094" g_length="409"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="407" r_length="407" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E361603" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>409</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E361603" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97502" e_stop="97094"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGC</genome_strand>
        <mrna_strand>CTTCTTCT-CTCTCATT-CTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728958" ref_strand="+" ref_description="SGN-E728958 [LA19CA12]">
      <seq>gtataaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagcttctggtggacgttatgttcctagggcggttttgatggatctagagcctggtactatggatagtatcagatctggtccctatggacagatcttccgtcctgataactttgtctttggacagcctggtgctgaaaatatctgggccaaaggtcattatactgaaggcgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97741" stop="96807"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97443" g_stop="97107" g_length="337"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="337" r_length="337" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E728958" ref_strand="+">
        <total_alignment_score>0.976</total_alignment_score>
        <cumulative_length_of_scored_exons>337</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728958" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97443" e_stop="97107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTG</genome_strand>
        <mrna_strand>GTATAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACTATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGCCTGGTGCTGAAAATATCTGGGCCAAAGGTCATTATACTGAAGGCGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E321037" ref_strand="+" ref_description="SGN-E321037 [cTOB-13-F18]">
      <seq>ccatttctccctacatctacatctccagggtcattttttcttcttcttattctctcatccctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagctagaacgtatcaatgtttatctcaatgaagcttctggtggacgttatgttcctagggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97814" stop="96950"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97544" g_stop="97250" g_length="295"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="295" r_length="295" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E321037" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>295</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321037" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97544" e_stop="97250"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGC</genome_strand>
        <mrna_strand>CCATTTCTCCCTACATCTACATCTCCAGGGTCATTTTTTCTTCTTCTTATTCTCTCATCCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTAGAACGTATCAATGTTTATCTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E203437" ref_strand="+" ref_description="SGN-E203437 [cLEC-15-A1]">
      <seq>tctctcattcctctcatcaatttttttcatcaaaaaaactcagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctgagtccgatcttcagcttgaacgtatcaatgtttatttcaatgaagct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97794" stop="96976"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97494" g_stop="97276" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="219" r_length="219" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E203437" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>219</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203437" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97494" e_stop="97276"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCT</genome_strand>
        <mrna_strand>TCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTCAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E347478" ref_strand="+" ref_description="SGN-E347478 [cTOF-33-D4]">
      <seq>atcttcatctcttcttcttcttattctctcattcctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcctaccggacgttacaaaggaaccgccgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97818" stop="97022"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97518" g_stop="97322" g_length="197"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="197" r_length="197" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E347478" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>197</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347478" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97518" e_stop="97322"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGA</genome_strand>
        <mrna_strand>ATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E363117" ref_strand="+" ref_description="SGN-E363117 [cLPP-19-A18]">
      <seq>tcattctctcatcaatttttttcatcaaaaaaactaagagaaaatgagagaaattcttcacattcaaggaggacaatgtggaaaccaaatcggttccaaattctgggaagttatctgtgatgaacacggtgttgatcccaccggacgttacaaaggaaccgccgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0331L22-cZNTd/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0331L22.1" temp_strand="-" temp_description="C04HBa0331L22.1  CU222538.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0331L22 sequenced_by:sanger upload_account_name:uk">
        <position start="97790" stop="97025"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="97490" g_stop="97325" g_length="166"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="165" r_length="165" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0331L22.1" gen_strand="-" ref_id="SGN-E363117" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>166</cumulative_length_of_scored_exons>
        <coverage percentage="1.006" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0331L22.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E363117" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="97490" e_stop="97325"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGC</genome_strand>
        <mrna_strand>TCATT-CTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCCACCGGACGTTACAAAGGAACCGCCGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>206</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="3720" PGL_stop="703"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="3689" e_stop="3462"/>
            <exon e_start="3335" e_stop="3252"/>
            <exon e_start="2952" e_stop="2901"/>
            <exon e_start="1305" e_stop="1149"/>
            <exon e_start="998" e_stop="703"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.987" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.957" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.945" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.648" 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="1.000">
            <gDNA_exon_boundary e_start="3689" e_stop="3462" e_length="228"/>
          </exon>
          <intron i_serial="1" don_prob="0.987" acc_prob="1.000">
            <gDNA_intron_boundary i_start="3461" i_stop="3336" i_length="126"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="3335" e_stop="3252" e_length="84"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.957">
            <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="2952" e_stop="2901" e_length="52"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.945">
            <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="1305" e_stop="1149" e_length="157"/>
          </exon>
          <intron i_serial="4" don_prob="0.999" acc_prob="0.648">
            <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="998" e_stop="703" e_length="296"/>
          </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="3689" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="725"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371646" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3677" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="951"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293664" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3677" stop="3462"/>
              <exon start="3335" stop="3257"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296486" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3674" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="895"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288337" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3674" stop="3464"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292489" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3660" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="703"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733802" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3611" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="725"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371647" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3475" stop="3462"/>
              <exon start="3335" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="855"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295012" 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>TTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACG : GTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT : GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC : AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG : GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTTCAATACCAGCTTTGTCCAATTGCTAGATGTTGTAAATGAAATTGAGCACCTGTGTGTATTGCATTTTAAAAAA</gDNA_template>
            <first_frame> F  S  D  S  D  D  S  K  I  H  S  *  T  K  H  *  K  K  R  E  E  M  L  T  A  P  S  L  S  R  F  K  S  P  F  I  S  S  P  L  K  L  P  T  L  S  S  S  F  F  T  Q  K  F  H  Q  T  C  R  R  R  N  S  Y  P  C  I  K  A  V  D  L  D  Q  N  T  :  V  I  A  I  T  V  G  V  L  S  V  A  I  G  V  G  I  P  V  F  Y  E  T  Q  I  D  N  A  :  A  K  R  E  N  T  Q  P  C  F  P  C  T  G  T  G  A   : Q  K  C  R  F  C  M  G  T  G  S  V  T  V  E  L  G  G  G  E  T  E  V  S  R  C  I  N  C  D  G  A  G  G  L  T  C  T  T  C  Q  G  S  G  I  Q  P  R  Y  L  D  R  R :   E  F  K  D  D  D  *  I  W  K  N  T  Q  H  G  C  H  N  L  F  I  V  *  K  T  C  H  F  D  L  N  I  L  T  Q  N  C  V  K  F  I  Y  V  H  P  L  S  L  P  F  S  V  F  T  Y  S  F  H  L  L  F  L  H  V  I  F  N  K  L  S  N  T  *  F  Q  Y  Q  L  C  P  I  A  R  C  C  K  *  N  *  A  P  V  C  I  A  F  *  K  </first_frame>
            <second_frame>  F  L  I  L  M  I  A  K  S  I  A  K  L  N  I  E  R  K  G  R  K  C  *  Q  H  L  H  F  P  A  L  S  L  H  L  S  A  H  L  L  S  F  L  L  F  L  L  L  F  S  L  R  N  F  I  K  H  V  V  G  E  I  R  T  H  V  L  K  L  W  I  L  I  K  T  R :   *  *  Q  L  Q  L  G  C  S  V  L  L  L  E  L  E  F  Q  F  F  M  R  P  K  L  I  M  L :   Q  K  E  R  T  L  S  P  A  S  P  A  L  A  L  V  L  :  R  N  A  D  F  A  W  V  L  A  V  *  R  W  S  L  E  G  V  R  Q  K  S  L  G  A  S  I  V  T  V  L  V  V  *  L  A  Q  H  V  K  A  V  A  F  N  L  G  T  L  I  A   : G  N  S  R  T  M  I  R  Y  G  R  I  L  S  M  D  A  T  T  C  L  L  S  R  R  P  V  I  L  T  *  I  Y  *  H  K  I  V  *  N  S  F  M  F  I  P  S  L  C  L  S  Q  F  S  H  I  P  F  T  F  C  S  Y  M  *  S  L  T  S  *  A  I  H  D  F  N  T  S  F  V  Q  L  L  D  V  V  N  E  I  E  H  L  C  V  L  H  F  K  K </second_frame>
            <third_frame>   F  *  F  *  *  *  Q  N  P  *  L  N  *  T  L  K  E  K  G  G  N  V  N  S  T  F  T  F  P  L  *  V  S  I  Y  Q  L  T  S  *  A  S  Y  S  F  F  F  F  F  H  S  E  I  S  S  N  M  S  *  A  K  F  V  P  M  Y  *  S  C  G  S  *  S  K  H   : G  D  S  N  Y  S  W  G  A  Q  C  C  Y  W  S  W  N  S  S  F  L  *  D  P  N  *  *  C   : C  K  K  R  E  H  S  A  L  L  P  L  H  W  H  W  C  S :   E  M  Q  I  L  H  G  Y  W  Q  C  D  G  G  A  W  R  G  *  D  R  S  L  S  V  H  Q  L  *  R  C  W  W  F  D  L  H  N  M  S  R  Q  W  H  S  T  S  V  P  *  S  Q  :  G  I  Q  G  R  *  L  D  M  E  E  Y  S  A  W  M  P  Q  L  V  Y  C  L  E  D  L  S  F  *  P  E  Y  I  D  T  K  L  C  K  I  H  L  C  S  S  P  L  S  A  F  L  S  F  H  I  F  L  S  P  S  V  L  T  C  N  L  *  Q  V  E  Q  Y  M  I  S  I  P  A  L  S  N  C  *  M  L  *  M  K  L  S  T  C  V  Y  C  I  L  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3641" stop="3462"/>
                    <exon start="3335" stop="3252"/>
                    <exon start="2952" stop="2901"/>
                    <exon start="1305" stop="1149"/>
                    <exon start="998" stop="977"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>492</number_coding_nucleotides>
                  <number_encoded_amino_acids>164</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KKREEMLTAPSLSRFKSPFISSPLKLPTLSSSFFTQKFHQTCRRRNSYPCIKAVDLDQNTVIAITVGVLSVAIGVGIPVFYETQIDNAAKRENTQPCFPCTGTGAQKCRFCMGTGSVTVELGGGETEVSRCINCDGAGGLTCTTCQGSGIQPRYLDRREFKDDD*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="3720" e_stop="3252"/>
            <exon e_start="2952" e_stop="2901"/>
            <exon e_start="1305" e_stop="1149"/>
            <exon e_start="998" e_stop="776"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.989" acc_prob="0.957" e_score="0.998"/>
          <exon-intron don_prob="0.999" acc_prob="0.945" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.648" e_score="0.994"/>
          <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="0.998">
            <gDNA_exon_boundary e_start="3720" e_stop="3252" e_length="469"/>
          </exon>
          <intron i_serial="1" don_prob="0.989" acc_prob="0.957">
            <gDNA_intron_boundary i_start="3251" i_stop="2953" i_length="299"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="2952" e_stop="2901" e_length="52"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.945">
            <gDNA_intron_boundary i_start="2900" i_stop="1306" i_length="1595"/>
          </intron>
          <exon e_serial="3" e_score="0.994">
            <gDNA_exon_boundary e_start="1305" e_stop="1149" e_length="157"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.648">
            <gDNA_intron_boundary i_start="1148" i_stop="999" i_length="150"/>
          </intron>
          <exon e_serial="4" e_score="0.987">
            <gDNA_exon_boundary e_start="998" e_stop="776" e_length="223"/>
          </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="3720" stop="3252"/>
              <exon start="2952" stop="2901"/>
              <exon start="1305" stop="1149"/>
              <exon start="998" stop="776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728582" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="3674" stop="3464"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292489" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AACAGTTGGTGTCAGTTTCAGAATTTCTTGTTTTTCTGATTCTGATGATAGCAAAATCCATAGCTAAACTAAACATTGAAAGAAAAGGGAGGAAATGTTAACAGCACCTTCACTTTCCCGCTTTAAGTCTCCATTTATCAGCTCACCTCTTAAGCTTCCTACTCTTTCTTCTTCTTTTTTCACTCAGAAATTTCATCAAACATGTCGTAGGCGAAATTCGTACCCATGTATTAAAGCTGTGGATCTTGATCAAAACACGGTTCTTTTCTTTCTCAAGTTCTCTTTTTGTGTTTTTCTCCATGATTATTGTTTAATTTCAGTTGATCTCATATGGGTTTTTTTTATTTTTTTTTTATTTTTGGGGAAATTGTGATGTACTTGGCAGGTGATAGCAATTACAGTTGGGGTGCTCAGTGTTGCTATTGGAGTTGGAATTCCAGTTTTTTATGAGACCCAAATTGATAATGCT : GCAAAAAGAGAGAACACTCAGCCCTGCTTCCCCTGCACTGGCACTGGTGCTC : AGAAATGCAGATTTTGCATGGGTACTGGCAGTGTGACGGTGGAGCTTGGAGGGGGTGAGACAGAAGTCTCTCGGTGCATCAATTGTGACGGTGCTGGTGGTTTGACTTGCACAACATGTCAAGGCAGTGGCATTCAACCTCGGTACCTTGATCGCAG : GGAATTCAAGGACGATGATTAGATATGGAAGAATACTCAGCATGGATGCCACAACTTGTTTATTGTCTAGAAGACCTGTCATTTTGACCTGAATATATTGACACAAAATTGTGTAAAATTCATTTATGTTCATCCCCTCTCTCTGCCTTTCTCAGTTTTCACATATTCCTTTCACCTTCTGTTCTTACATGTAATCTTTAACAAGTTGAGCAATACATGATTT</gDNA_template>
            <first_frame> N  S  W  C  Q  F  Q  N  F  L  F  F  *  F  *  *  *  Q  N  P  *  L  N  *  T  L  K  E  K  G  G  N  V  N  S  T  F  T  F  P  L  *  V  S  I  Y  Q  L  T  S  *  A  S  Y  S  F  F  F  F  F  H  S  E  I  S  S  N  M  S  *  A  K  F  V  P  M  Y  *  S  C  G  S  *  S  K  H  G  S  F  L  S  Q  V  L  F  L  C  F  S  P  *  L  L  F  N  F  S  *  S  H  M  G  F  F  Y  F  F  F  I  F  G  E  I  V  M  Y  L  A  G  D  S  N  Y  S  W  G  A  Q  C  C  Y  W  S  W  N  S  S  F  L  *  D  P  N  *  *  C   : C  K  K  R  E  H  S  A  L  L  P  L  H  W  H  W  C  S :   E  M  Q  I  L  H  G  Y  W  Q  C  D  G  G  A  W  R  G  *  D  R  S  L  S  V  H  Q  L  *  R  C  W  W  F  D  L  H  N  M  S  R  Q  W  H  S  T  S  V  P  *  S  Q  :  G  I  Q  G  R  *  L  D  M  E  E  Y  S  A  W  M  P  Q  L  V  Y  C  L  E  D  L  S  F  *  P  E  Y  I  D  T  K  L  C  K  I  H  L  C  S  S  P  L  S  A  F  L  S  F  H  I  F  L  S  P  S  V  L  T  C  N  L  *  Q  V  E  Q  Y  M  I  </first_frame>
            <second_frame>  T  V  G  V  S  F  R  I  S  C  F  S  D  S  D  D  S  K  I  H  S  *  T  K  H  *  K  K  R  E  E  M  L  T  A  P  S  L  S  R  F  K  S  P  F  I  S  S  P  L  K  L  P  T  L  S  S  S  F  F  T  Q  K  F  H  Q  T  C  R  R  R  N  S  Y  P  C  I  K  A  V  D  L  D  Q  N  T  V  L  F  F  L  K  F  S  F  C  V  F  L  H  D  Y  C  L  I  S  V  D  L  I  W  V  F  F  I  F  F  L  F  L  G  K  L  *  C  T  W  Q  V  I  A  I  T  V  G  V  L  S  V  A  I  G  V  G  I  P  V  F  Y  E  T  Q  I  D  N  A  :  A  K  R  E  N  T  Q  P  C  F  P  C  T  G  T  G  A   : Q  K  C  R  F  C  M  G  T  G  S  V  T  V  E  L  G  G  G  E  T  E  V  S  R  C  I  N  C  D  G  A  G  G  L  T  C  T  T  C  Q  G  S  G  I  Q  P  R  Y  L  D  R  R :   E  F  K  D  D  D  *  I  W  K  N  T  Q  H  G  C  H  N  L  F  I  V  *  K  T  C  H  F  D  L  N  I  L  T  Q  N  C  V  K  F  I  Y  V  H  P  L  S  L  P  F  S  V  F  T  Y  S  F  H  L  L  F  L  H  V  I  F  N  K  L  S  N  T  *  F </second_frame>
            <third_frame>   Q  L  V  S  V  S  E  F  L  V  F  L  I  L  M  I  A  K  S  I  A  K  L  N  I  E  R  K  G  R  K  C  *  Q  H  L  H  F  P  A  L  S  L  H  L  S  A  H  L  L  S  F  L  L  F  L  L  L  F  S  L  R  N  F  I  K  H  V  V  G  E  I  R  T  H  V  L  K  L  W  I  L  I  K  T  R  F  F  S  F  S  S  S  L  F  V  F  F  S  M  I  I  V  *  F  Q  L  I  S  Y  G  F  F  L  F  F  F  Y  F  W  G  N  C  D  V  L  G  R  *  *  Q  L  Q  L  G  C  S  V  L  L  L  E  L  E  F  Q  F  F  M  R  P  K  L  I  M  L :   Q  K  E  R  T  L  S  P  A  S  P  A  L  A  L  V  L  :  R  N  A  D  F  A  W  V  L  A  V  *  R  W  S  L  E  G  V  R  Q  K  S  L  G  A  S  I  V  T  V  L  V  V  *  L  A  Q  H  V  K  A  V  A  F  N  L  G  T  L  I  A   : G  N  S  R  T  M  I  R  Y  G  R  I  L  S  M  D  A  T  T  C  L  L  S  R  R  P  V  I  L  T  *  I  Y  *  H  K  I  V  *  N  S  F  M  F  I  P  S  L  C  L  S  Q  F  S  H  I  P  F  T  F  C  S  Y  M  *  S  L  T  S  *  A  I  H  D   </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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3347" stop="3252"/>
                    <exon start="2952" stop="2901"/>
                    <exon start="1305" stop="1149"/>
                    <exon start="998" stop="977"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>324</number_coding_nucleotides>
                  <number_encoded_amino_acids>108</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CTWQVIAITVGVLSVAIGVGIPVFYETQIDNAAKRENTQPCFPCTGTGAQKCRFCMGTGSVTVELGGGETEVSRCINCDGAGGLTCTTCQGSGIQPRYLDRREFKDDD*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="3641" stop="3348"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KKREEMLTAPSLSRFKSPFISSPLKLPTLSSSFFTQKFHQTCRRRNSYPCIKAVDLDQNTVLFFLKFSFCVFLHDYCLISVDLIWVFFIFFLFLGKL*</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="727" PGL_stop="1015"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="727" e_stop="1015"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.955"/>
        </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="0.955">
            <gDNA_exon_boundary e_start="727" e_stop="1015" e_length="289"/>
          </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="727" stop="1015"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280591" 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>GTGCTCAATTTCATTTACAACATCTAGCAATTGGACAAAGCTGGTATTGAAATCATGTATTGCTCAACTTGTTAAAGATTACATGTAAGAACAGAAGGTGAAAGGAATATGTGAAAACTGAGAAAGGCAGAGAGAGGGGATGAACATAAATGAATTTTACACAATTTTGTGTCAATATATTCAGGTCAAAATGACAGGTCTTCTAGACAATAAACAAGTTGTGGCATCCATGCTGAGTATTCTTCCATATCTAATCATCGTCCTTGAATTCCCTGTCGAGAAGAAGATG</gDNA_template>
            <first_frame> V  L  N  F  I  Y  N  I  *  Q  L  D  K  A  G  I  E  I  M  Y  C  S  T  C  *  R  L  H  V  R  T  E  G  E  R  N  M  *  K  L  R  K  A  E  R  G  D  E  H  K  *  I  L  H  N  F  V  S  I  Y  S  G  Q  N  D  R  S  S  R  Q  *  T  S  C  G  I  H  A  E  Y  S  S  I  S  N  H  R  P  *  I  P  C  R  E  E  D  </first_frame>
            <second_frame>  C  S  I  S  F  T  T  S  S  N  W  T  K  L  V  L  K  S  C  I  A  Q  L  V  K  D  Y  M  *  E  Q  K  V  K  G  I  C  E  N  *  E  R  Q  R  E  G  M  N  I  N  E  F  Y  T  I  L  C  Q  Y  I  Q  V  K  M  T  G  L  L  D  N  K  Q  V  V  A  S  M  L  S  I  L  P  Y  L  I  I  V  L  E  F  P  V  E  K  K  M </second_frame>
            <third_frame>   A  Q  F  H  L  Q  H  L  A  I  G  Q  S  W  Y  *  N  H  V  L  L  N  L  L  K  I  T  C  K  N  R  R  *  K  E  Y  V  K  T  E  K  G  R  E  R  G  *  T  *  M  N  F  T  Q  F  C  V  N  I  F  R  S  K  *  Q  V  F  *  T  I  N  K  L  W  H  P  C  *  V  F  F  H  I  *  S  S  S  L  N  S  L  S  R  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/">
            <none gDNA_id="C04HBa0331L22.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="7394" PGL_stop="4311"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="7394" e_stop="7316"/>
            <exon e_start="7224" e_stop="7091"/>
            <exon e_start="6680" e_stop="6608"/>
            <exon e_start="6040" e_stop="5958"/>
            <exon e_start="5223" e_stop="5185"/>
            <exon e_start="5068" e_stop="4998"/>
            <exon e_start="4930" e_stop="4816"/>
            <exon e_start="4739" e_stop="4311"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.969" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.939" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.908" acc_prob="0.812" e_score="1.000"/>
          <exon-intron don_prob="0.865" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="0.941"/>
        </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="7394" e_stop="7316" e_length="79"/>
          </exon>
          <intron i_serial="1" don_prob="0.969" acc_prob="1.000">
            <gDNA_intron_boundary i_start="7315" i_stop="7225" i_length="91"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="7224" e_stop="7091" e_length="134"/>
          </exon>
          <intron i_serial="2" don_prob="0.996" acc_prob="0.991">
            <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="6680" e_stop="6608" e_length="73"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="6040" e_stop="5958" e_length="83"/>
          </exon>
          <intron i_serial="4" don_prob="0.986" acc_prob="0.939">
            <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="5223" e_stop="5185" e_length="39"/>
          </exon>
          <intron i_serial="5" don_prob="0.986" acc_prob="0.999">
            <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="5068" e_stop="4998" e_length="71"/>
          </exon>
          <intron i_serial="6" don_prob="0.908" acc_prob="0.812">
            <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="4930" e_stop="4816" e_length="115"/>
          </exon>
          <intron i_serial="7" don_prob="0.865" acc_prob="0.982">
            <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76"/>
          </intron>
          <exon e_serial="8" e_score="0.941">
            <gDNA_exon_boundary e_start="4739" e_stop="4311" e_length="429"/>
          </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="7394" stop="7316"/>
              <exon start="7224" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="5009"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E265774" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7374" stop="7316"/>
              <exon start="7224" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4435"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730550" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7374" stop="7316"/>
              <exon start="7224" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4469"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733988" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7372" stop="7316"/>
              <exon start="7224" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4375"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728216" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7354" stop="7316"/>
              <exon start="7224" stop="7091"/>
              <exon start="6680" stop="6645"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316601" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7185" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5193"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295631" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6653" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4510"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325856" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6644" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4315"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546290" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5033" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711292" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5033" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711311" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4925" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733019" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4693" stop="4396"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E268625" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4692" stop="4311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293623" 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>CTCACTCTTTTCAATTTCAGAGAAACTGCAATGGAGAGCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACA : AAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG : ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAG : GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG : ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG : GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA : ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT : AACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAAATTCTAGCTCATATATTGTATCATACATTTTACAGTTCTAACATATAATTTGGTT</gDNA_template>
            <first_frame> L  T  L  F  N  F  R  E  T  A  M  E  S  A  L  L  S  A  S  R  F  T  T  A  L  H   : K  A  E  R  E  V  V  G  G  P  V  A  V  R  K  L  Q  S  S  F  Y  G  K  E  I  N  S  H  T  L  F  T  K  N  F  K  K  I  N  L  T  I  T  S  V  :  M  R  K  K  L  I  K  K  E  T  V  V  P  D  P  D  Y  R  I  P  I  V  L  L   : G  L  S  G  G  L  F  Y  V  E  N  L  P  A  A  V  P  I  G  L  L  G  L  L  L  L  F  Q  :  T  T  R  V  R  F  V  F  D  D  E  A  L  :  E  V  K  V  G  E  Q  L  E  E  S  G  E  N  V  F  V  G  G  K  N  R  W  K :   Y  S  S  F  V  N  W  E  L  W  W  P  N  F  P  I  L  V  Y  F  K  E  K  Q  T  K  P  E  G  Q  I  H  F  F  P  V  I  F  :  N  G  R  Q  L  Y  D  A  M  V  E  R  C  G  P  S  K  T  S  G  P  K  *  C  N  M  S  S  R  E  K  T  N  M  S  Q  T  N  H  T  I  R  I  C  G  K  G  M  K  L  N  E  V  K  E  L  V  S  *  V  T  R  C  G  F  I  N  *  C  I  F  P  F  M  F  L  H  V  C  K  I  T  K  I  N  Y  Q  S  E  Y  V  S  Q  L  T  K  S  C  I  I  C  I  T  I  T  V  *  K  A  V  T  G  C  K  L  Y  V  F  T  F  G  M  C  Y  K  F  *  L  I  Y  C  I  I  H  F  T  V  L  T  Y  N  L  V </first_frame>
            <second_frame>  S  L  F  S  I  S  E  K  L  Q  W  R  A  L  F  S  L  L  P  A  S  L  L  L  C  T  :  K  Q  K  E  K  *  *  V  D  L  W  L  *  G  N  Y  R  A  H  S  M  A  K  R  L  I  V  I  L  F  S  L  K  T  S  K  K  S  I  S  L  S  P  Q  * :   C  G  R  N  *  *  R  R  R  L  L  F  L  I  Q  I  T  E  F  L  L  S  F  *  :  G  Y  L  V  V  Y  F  M  W  K  I  Y  P  Q  Q  F  L  L  V  F  L  D  Y  S  C  Y  S  R :   Q  Q  E  *  D  L  S  L  M  M  R  L  W :   R  *  K  L  G  S  N  S  R  S  Q  V  K  M  F  S  W  V  E  R  T  A  G   : N  I  L  H  L  *  T  G  S  Y  G  G  Q  T  F  R  F  W  F  I  L  K  R  N  R  Q  N  P  R  D  K  Y  T  F  S  Q  *  F  L :   T  G  G  N  C  T  M  L  W  W  R  D  V  A  L  Q  K  L  A  D  Q  S  S  A  T  *  A  P  G  R  R  R  I  *  A  R  Q  T  I  Q  S  E  F  V  A  K  V  *  S  S  T  R  L  R  N  S  S  V  E  S  Q  D  V  V  S  S  I  N  V  Y  S  L  S  C  F  Y  T  S  V  K  S  Q  R  *  T  I  N  L  S  M  C  H  N  S  Q  N  H  V  L  Y  V  S  P  L  L  Y  E  R  R  *  L  D  A  N  Y  M  Y  S  H  L  E  C  V  T  N  S  S  S  Y  I  V  S  Y  I  L  Q  F  *  H  I  I  W   </second_frame>
            <third_frame>   H  S  F  Q  F  Q  R  N  C  N  G  E  R  S  S  L  C  F  P  L  H  Y  C  S  A  Q :   S  R  K  R  S  S  R  W  T  C  G  C  E  E  I  T  E  L  I  L  W  Q  R  D  *  *  S  Y  S  F  H  *  K  L  Q  K  N  Q  S  H  Y  H  L  S   : D  A  E  E  T  D  K  E  G  D  C  C  S  *  S  R  L  P  N  S  Y  C  P  S  R :   V  I  W  W  F  I  L  C  G  K  S  T  R  S  S  S  Y  W  S  S  W  I  T  P  V  I  P   : D  N  K  S  E  I  C  L  *  *  *  G  S   : G  G  E  S  W  G  A  T  R  G  V  R  *  K  C  F  R  G  W  K  E  P  L  E  :  I  F  F  I  C  E  L  G  A  M  V  A  K  L  S  D  F  G  L  F  *  R  E  T  D  K  T  R  G  T  N  T  L  F  P  S  D  F   : *  R  E  A  T  V  R  C  Y  G  G  E  M  W  P  F  K  N  *  R  T  K  V  V  Q  H  E  L  Q  G  E  D  E  Y  E  P  D  K  P  Y  N  Q  N  L  W  Q  R  Y  E  A  Q  R  G  *  G  T  R  Q  L  S  H  K  M  W  F  H  Q  L  M  Y  I  P  F  H  V  F  T  R  L  *  N  H  K  D  K  L  S  I  *  V  C  V  T  T  H  K  I  M  Y  Y  M  Y  H  H  Y  C  M  K  G  G  N  W  M  Q  T  I  C  I  H  I  W  N  V  L  Q  I  L  A  H  I  L  Y  H  T  F  Y  S  S  N  I  *  F  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7394" stop="7316"/>
                    <exon start="7224" stop="7091"/>
                    <exon start="6680" stop="6608"/>
                    <exon start="6040" stop="5958"/>
                    <exon start="5223" stop="5185"/>
                    <exon start="5068" stop="4998"/>
                    <exon start="4930" stop="4816"/>
                    <exon start="4739" stop="4671"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>660</number_coding_nucleotides>
                  <number_encoded_amino_acids>220</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LTLFNFRETAMESALLSASRFTTALHKAEREVVGGPVAVRKLQSSFYGKEINSHTLFTKNFKKINLTITSVMRKKLIKKETVVPDPDYRIPIVLLGLSGGLFYVENLPAAVPIGLLGLLLLFQTTRVRFVFDDEALEVKVGEQLEESGENVFVGGKNRWKYSSFVNWELWWPNFPILVYFKEKQTKPEGQIHFFPVIFNGRQLYDAMVERCGPSKTSGPK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="7357" e_stop="7091"/>
            <exon e_start="6680" e_stop="6608"/>
            <exon e_start="6040" e_stop="5958"/>
            <exon e_start="5223" e_stop="5185"/>
            <exon e_start="5068" e_stop="4998"/>
            <exon e_start="4930" e_stop="4816"/>
            <exon e_start="4739" e_stop="4311"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.996" acc_prob="0.991" e_score="0.978"/>
          <exon-intron don_prob="0.999" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.939" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.908" acc_prob="0.812" e_score="0.986"/>
          <exon-intron don_prob="0.865" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="0.941"/>
        </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="0.978">
            <gDNA_exon_boundary e_start="7357" e_stop="7091" e_length="267"/>
          </exon>
          <intron i_serial="1" don_prob="0.996" acc_prob="0.991">
            <gDNA_intron_boundary i_start="7090" i_stop="6681" i_length="410"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6680" e_stop="6608" e_length="73"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.999">
            <gDNA_intron_boundary i_start="6607" i_stop="6041" i_length="567"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="6040" e_stop="5958" e_length="83"/>
          </exon>
          <intron i_serial="3" don_prob="0.986" acc_prob="0.939">
            <gDNA_intron_boundary i_start="5957" i_stop="5224" i_length="734"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="5223" e_stop="5185" e_length="39"/>
          </exon>
          <intron i_serial="4" don_prob="0.986" acc_prob="0.999">
            <gDNA_intron_boundary i_start="5184" i_stop="5069" i_length="116"/>
          </intron>
          <exon e_serial="5" e_score="0.986">
            <gDNA_exon_boundary e_start="5068" e_stop="4998" e_length="71"/>
          </exon>
          <intron i_serial="5" don_prob="0.908" acc_prob="0.812">
            <gDNA_intron_boundary i_start="4997" i_stop="4931" i_length="67"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="4930" e_stop="4816" e_length="115"/>
          </exon>
          <intron i_serial="6" don_prob="0.865" acc_prob="0.982">
            <gDNA_intron_boundary i_start="4815" i_stop="4740" i_length="76"/>
          </intron>
          <exon e_serial="7" e_score="0.941">
            <gDNA_exon_boundary e_start="4739" e_stop="4311" e_length="429"/>
          </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="7357" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4717"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546249" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7356" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5206"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358628" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="7185" stop="7091"/>
              <exon start="6680" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5193"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295631" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6653" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4510"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325856" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6644" stop="6608"/>
              <exon start="6040" stop="5958"/>
              <exon start="5223" stop="5185"/>
              <exon start="5068" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4315"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546290" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5033" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711292" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5033" stop="4998"/>
              <exon start="4930" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711311" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4925" stop="4816"/>
              <exon start="4739" stop="4366"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733019" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4693" stop="4396"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E268625" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="4692" stop="4311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293623" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCGCTCTTCTCTCTGCTTCCCGCTTCACTACTGCTCTGCACAGTTGAGCAAAATTTCTGTAAAATTAAACTTTGTTAAGCTTATCTTAAAATTTTCTTGTATTGTAAACTAATTTTTGTTTTGTATTTATCAGAAGCAGAAAGAGAAGTAGTAGGTGGACCTGTGGCTGTGAGGAAATTACAGAGCTCATTCTATGGCAAAGAGATTAATAGTCATACTCTTTTCACTAAAAACTTCAAAAAAATCAATCTCACTATCACCTCAGTG : ATGCGGAAGAAACTGATAAAGAAGGAGACTGTTGTTCCTGATCCAGATTACCGAATTCCTATTGTCCTTCTAG : GGTTATCTGGTGGTTTATTTTATGTGGAAAATCTACCCGCAGCAGTTCCTATTGGTCTTCTTGGATTACTCCTGTTATTCCAG : ACAACAAGAGTGAGATTTGTCTTTGATGATGAGGCTCTG : GAGGTGAAAGTTGGGGAGCAACTCGAGGAGTCAGGTGAAAATGTTTTCGTGGGTGGAAAGAACCGCTGGAA : ATATTCTTCATTTGTGAACTGGGAGCTATGGTGGCCAAACTTTCCGATTTTGGTTTATTTTAAAGAGAAACAGACAAAACCCGAGGGACAAATACACTTTTTCCCAGTGATTTTT : AACGGGAGGCAACTGTACGATGCTATGGTGGAGAGATGTGGCCCTTCAAAAACTAGCGGACCAAAGTAGTGCAACATGAGCTCCAGGGAGAAGACGAATATGAGCCAGACAAACCATACAATCAGAATTTGTGGCAAAGGTATGAAGCTCAACGAGGTTAAGGAACTCGTCAGTTGAGTCACAAGATGTGGTTTCATCAATTAATGTATATTCCCTTTCATGTTTTTACACGTCTGTAAAATCACAAAGATAAACTATCAATCTGAGTATGTGTCACAACTCACAAAATCATGTATTATATGTATCACCATTACTGTATGAAAGGCGGTAACTGGATGCAAACTATATGTATTCACATTTGGAATGTGTTACAAATTCTAGCTCATATATTGTATCATACATTTTACAGTTCTAACATATAATTTGGTT</gDNA_template>
            <first_frame> A  L  F  S  L  L  P  A  S  L  L  L  C  T  V  E  Q  N  F  C  K  I  K  L  C  *  A  Y  L  K  I  F  L  Y  C  K  L  I  F  V  L  Y  L  S  E  A  E  R  E  V  V  G  G  P  V  A  V  R  K  L  Q  S  S  F  Y  G  K  E  I  N  S  H  T  L  F  T  K  N  F  K  K  I  N  L  T  I  T  S  V  :  M  R  K  K  L  I  K  K  E  T  V  V  P  D  P  D  Y  R  I  P  I  V  L  L   : G  L  S  G  G  L  F  Y  V  E  N  L  P  A  A  V  P  I  G  L  L  G  L  L  L  L  F  Q  :  T  T  R  V  R  F  V  F  D  D  E  A  L  :  E  V  K  V  G  E  Q  L  E  E  S  G  E  N  V  F  V  G  G  K  N  R  W  K :   Y  S  S  F  V  N  W  E  L  W  W  P  N  F  P  I  L  V  Y  F  K  E  K  Q  T  K  P  E  G  Q  I  H  F  F  P  V  I  F  :  N  G  R  Q  L  Y  D  A  M  V  E  R  C  G  P  S  K  T  S  G  P  K  *  C  N  M  S  S  R  E  K  T  N  M  S  Q  T  N  H  T  I  R  I  C  G  K  G  M  K  L  N  E  V  K  E  L  V  S  *  V  T  R  C  G  F  I  N  *  C  I  F  P  F  M  F  L  H  V  C  K  I  T  K  I  N  Y  Q  S  E  Y  V  S  Q  L  T  K  S  C  I  I  C  I  T  I  T  V  *  K  A  V  T  G  C  K  L  Y  V  F  T  F  G  M  C  Y  K  F  *  L  I  Y  C  I  I  H  F  T  V  L  T  Y  N  L  V </first_frame>
            <second_frame>  R  S  S  L  C  F  P  L  H  Y  C  S  A  Q  L  S  K  I  S  V  K  L  N  F  V  K  L  I  L  K  F  S  C  I  V  N  *  F  L  F  C  I  Y  Q  K  Q  K  E  K  *  *  V  D  L  W  L  *  G  N  Y  R  A  H  S  M  A  K  R  L  I  V  I  L  F  S  L  K  T  S  K  K  S  I  S  L  S  P  Q  * :   C  G  R  N  *  *  R  R  R  L  L  F  L  I  Q  I  T  E  F  L  L  S  F  *  :  G  Y  L  V  V  Y  F  M  W  K  I  Y  P  Q  Q  F  L  L  V  F  L  D  Y  S  C  Y  S  R :   Q  Q  E  *  D  L  S  L  M  M  R  L  W :   R  *  K  L  G  S  N  S  R  S  Q  V  K  M  F  S  W  V  E  R  T  A  G   : N  I  L  H  L  *  T  G  S  Y  G  G  Q  T  F  R  F  W  F  I  L  K  R  N  R  Q  N  P  R  D  K  Y  T  F  S  Q  *  F  L :   T  G  G  N  C  T  M  L  W  W  R  D  V  A  L  Q  K  L  A  D  Q  S  S  A  T  *  A  P  G  R  R  R  I  *  A  R  Q  T  I  Q  S  E  F  V  A  K  V  *  S  S  T  R  L  R  N  S  S  V  E  S  Q  D  V  V  S  S  I  N  V  Y  S  L  S  C  F  Y  T  S  V  K  S  Q  R  *  T  I  N  L  S  M  C  H  N  S  Q  N  H  V  L  Y  V  S  P  L  L  Y  E  R  R  *  L  D  A  N  Y  M  Y  S  H  L  E  C  V  T  N  S  S  S  Y  I  V  S  Y  I  L  Q  F  *  H  I  I  W   </second_frame>
            <third_frame>   A  L  L  S  A  S  R  F  T  T  A  L  H  S  *  A  K  F  L  *  N  *  T  L  L  S  L  S  *  N  F  L  V  L  *  T  N  F  C  F  V  F  I  R  S  R  K  R  S  S  R  W  T  C  G  C  E  E  I  T  E  L  I  L  W  Q  R  D  *  *  S  Y  S  F  H  *  K  L  Q  K  N  Q  S  H  Y  H  L  S   : D  A  E  E  T  D  K  E  G  D  C  C  S  *  S  R  L  P  N  S  Y  C  P  S  R :   V  I  W  W  F  I  L  C  G  K  S  T  R  S  S  S  Y  W  S  S  W  I  T  P  V  I  P   : D  N  K  S  E  I  C  L  *  *  *  G  S   : G  G  E  S  W  G  A  T  R  G  V  R  *  K  C  F  R  G  W  K  E  P  L  E  :  I  F  F  I  C  E  L  G  A  M  V  A  K  L  S  D  F  G  L  F  *  R  E  T  D  K  T  R  G  T  N  T  L  F  P  S  D  F   : *  R  E  A  T  V  R  C  Y  G  G  E  M  W  P  F  K  N  *  R  T  K  V  V  Q  H  E  L  Q  G  E  D  E  Y  E  P  D  K  P  Y  N  Q  N  L  W  Q  R  Y  E  A  Q  R  G  *  G  T  R  Q  L  S  H  K  M  W  F  H  Q  L  M  Y  I  P  F  H  V  F  T  R  L  *  N  H  K  D  K  L  S  I  *  V  C  V  T  T  H  K  I  M  Y  Y  M  Y  H  H  Y  C  M  K  G  G  N  W  M  Q  T  I  C  I  H  I  W  N  V  L  Q  I  L  A  H  I  L  Y  H  T  F  Y  S  S  N  I  *  F  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="7279" stop="7091"/>
                    <exon start="6680" stop="6608"/>
                    <exon start="6040" stop="5958"/>
                    <exon start="5223" stop="5185"/>
                    <exon start="5068" stop="4998"/>
                    <exon start="4930" stop="4816"/>
                    <exon start="4739" stop="4671"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>636</number_coding_nucleotides>
                  <number_encoded_amino_acids>212</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>AYLKIFLYCKLIFVLYLSEAEREVVGGPVAVRKLQSSFYGKEINSHTLFTKNFKKINLTITSVMRKKLIKKETVVPDPDYRIPIVLLGLSGGLFYVENLPAAVPIGLLGLLLLFQTTRVRFVFDDEALEVKVGEQLEESGENVFVGGKNRWKYSSFVNWELWWPNFPILVYFKEKQTKPEGQIHFFPVIFNGRQLYDAMVERCGPSKTSGPK*</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="13714" PGL_stop="14141"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="13714" e_stop="14141"/>
          </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="13714" e_stop="14141" e_length="428"/>
          </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="13714" stop="14141"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E350494" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13714" stop="14141"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E354342" 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>AAAGACAAGGACCTCAAACAACCCTTGATTTATGTCATCAAGTACTTAACCCCCCATGGTAATTTGAATATGTAGTTTATATACATCGGAAAAAGGATTGGTTCTTCAATGTACATCTGGCATATCTTAGTTCATTCATTACTGTTGTCCATGATTTTTTAGCATGGCTCGAAAAGTATAAGGGTCGTCGAGTGTGTAGGATTGCCAGATGCAATTACCATTCATTATTAAATATCCAAATTATAGTACTTACGTTTGTGTGAAGGTGGGAAAATGATCATGAATCTATGAAGTTAAGAGTTATCTTAGAGGATCACTGTACATACATATAAACATCTGGTTCTTGAGATGGCTTGGTTGATGTACTGAATGGTAATTGGAATGGGACTGGGCTTCTATAATTGTATCTCTTCTAATAAACTTTTGAA</gDNA_template>
            <first_frame> K  D  K  D  L  K  Q  P  L  I  Y  V  I  K  Y  L  T  P  H  G  N  L  N  M  *  F  I  Y  I  G  K  R  I  G  S  S  M  Y  I  W  H  I  L  V  H  S  L  L  L  S  M  I  F  *  H  G  S  K  S  I  R  V  V  E  C  V  G  L  P  D  A  I  T  I  H  Y  *  I  S  K  L  *  Y  L  R  L  C  E  G  G  K  M  I  M  N  L  *  S  *  E  L  S  *  R  I  T  V  H  T  Y  K  H  L  V  L  E  M  A  W  L  M  Y  *  M  V  I  G  M  G  L  G  F  Y  N  C  I  S  S  N  K  L  L   </first_frame>
            <second_frame>  K  T  R  T  S  N  N  P  *  F  M  S  S  S  T  *  P  P  M  V  I  *  I  C  S  L  Y  T  S  E  K  G  L  V  L  Q  C  T  S  G  I  S  *  F  I  H  Y  C  C  P  *  F  F  S  M  A  R  K  V  *  G  S  S  S  V  *  D  C  Q  M  Q  L  P  F  I  I  K  Y  P  N  Y  S  T  Y  V  C  V  K  V  G  K  *  S  *  I  Y  E  V  K  S  Y  L  R  G  S  L  Y  I  H  I  N  I  W  F  L  R  W  L  G  *  C  T  E  W  *  L  E  W  D  W  A  S  I  I  V  S  L  L  I  N  F  *  </second_frame>
            <third_frame>   R  Q  G  P  Q  T  T  L  D  L  C  H  Q  V  L  N  P  P  W  *  F  E  Y  V  V  Y  I  H  R  K  K  D  W  F  F  N  V  H  L  A  Y  L  S  S  F  I  T  V  V  H  D  F  L  A  W  L  E  K  Y  K  G  R  R  V  C  R  I  A  R  C  N  Y  H  S  L  L  N  I  Q  I  I  V  L  T  F  V  *  R  W  E  N  D  H  E  S  M  K  L  R  V  I  L  E  D  H  C  T  Y  I  *  T  S  G  S  *  D  G  L  V  D  V  L  N  G  N  W  N  G  T  G  L  L  *  L  Y  L  F  *  *  T  F  E </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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="13776" stop="13976"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>198</number_coding_nucleotides>
                  <number_encoded_amino_acids>66</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FEYVVYIHRKKDWFFNVHLAYLSSFITVVHDFLAWLEKYKGRRVCRIARCNYHSLLNIQIIVLTFV*</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="15852" PGL_stop="14848"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="15852" e_stop="15800"/>
            <exon e_start="15605" e_stop="15431"/>
            <exon e_start="15141" e_stop="14848"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.982" acc_prob="0.650" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.996" e_score="1.000"/>
          <exon-only e_score="0.976"/>
        </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="15852" e_stop="15800" e_length="53"/>
          </exon>
          <intron i_serial="1" don_prob="0.982" acc_prob="0.650">
            <gDNA_intron_boundary i_start="15799" i_stop="15606" i_length="194"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="15605" e_stop="15431" e_length="175"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.996">
            <gDNA_intron_boundary i_start="15430" i_stop="15142" i_length="289"/>
          </intron>
          <exon e_serial="3" e_score="0.976">
            <gDNA_exon_boundary e_start="15141" e_stop="14848" e_length="294"/>
          </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="15852" stop="15800"/>
              <exon start="15605" stop="15431"/>
              <exon start="15141" stop="14848"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318126" 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>TATAAGCTTATTCTTAGAAGCACAACAGGGCCGATAGATTTGTTTCTCTTGAG : CAAACAGGGTAGGCAGCATGAGGACATAACCATCAAACATGACAAGTCCATGGATTCAGTGTCTGCTGCAAAAAAGATGGATGATGCTTACCCATCCCCAGCACATCCTTGCTCTTTAGATTCAACAGACTCAAAGCTCTCGGGTGTCCATAAAATAGTACCTTCTCATAACAGT : ATAGATGATGATTACTGGTTGCGCTCGGAGGAGGCGGTTAGCGCAACTGCTCTGTGGGGCATTGAATAATCTTTAAAATTGAGCCTGGTTACAAACTCCATATATGGATACCAGAAGATATACAGAAATAAGGCTTCTTATAAACATGTAAATATCTTTTGAAGCTAAAAAGCTTTACATATCTCTAGCCAGATTATAGTAAGAAACAACTGGTTTCAGGGAAACTCCTACAACTTTTGCGTACAACTATATGGTTCACAGGAATATCAGTCTTATGATTAACCAATGCTGGGA</gDNA_template>
            <first_frame> Y  K  L  I  L  R  S  T  T  G  P  I  D  L  F  L  L  S :   K  Q  G  R  Q  H  E  D  I  T  I  K  H  D  K  S  M  D  S  V  S  A  A  K  K  M  D  D  A  Y  P  S  P  A  H  P  C  S  L  D  S  T  D  S  K  L  S  G  V  H  K  I  V  P  S  H  N  S  :  I  D  D  D  Y  W  L  R  S  E  E  A  V  S  A  T  A  L  W  G  I  E  *  S  L  K  L  S  L  V  T  N  S  I  Y  G  Y  Q  K  I  Y  R  N  K  A  S  Y  K  H  V  N  I  F  *  S  *  K  A  L  H  I  S  S  Q  I  I  V  R  N  N  W  F  Q  G  N  S  Y  N  F  C  V  Q  L  Y  G  S  Q  E  Y  Q  S  Y  D  *  P  M  L  G </first_frame>
            <second_frame>  I  S  L  F  L  E  A  Q  Q  G  R  *  I  C  F  S  *   : A  N  R  V  G  S  M  R  T  *  P  S  N  M  T  S  P  W  I  Q  C  L  L  Q  K  R  W  M  M  L  T  H  P  Q  H  I  L  A  L  *  I  Q  Q  T  Q  S  S  R  V  S  I  K  *  Y  L  L  I  T  V :   *  M  M  I  T  G  C  A  R  R  R  R  L  A  Q  L  L  C  G  A  L  N  N  L  *  N  *  A  W  L  Q  T  P  Y  M  D  T  R  R  Y  T  E  I  R  L  L  I  N  M  *  I  S  F  E  A  K  K  L  Y  I  S  L  A  R  L  *  *  E  T  T  G  F  R  E  T  P  T  T  F  A  Y  N  Y  M  V  H  R  N  I  S  L  M  I  N  Q  C  W   </second_frame>
            <third_frame>   *  A  Y  S  *  K  H  N  R  A  D  R  F  V  S  L  E  :  Q  T  G  *  A  A  *  G  H  N  H  Q  T  *  Q  V  H  G  F  S  V  C  C  K  K  D  G  *  C  L  P  I  P  S  T  S  L  L  F  R  F  N  R  L  K  A  L  G  C  P  *  N  S  T  F  S  *  Q   : Y  R  *  *  L  L  V  A  L  G  G  G  G  *  R  N  C  S  V  G  H  *  I  I  F  K  I  E  P  G  Y  K  L  H  I  W  I  P  E  D  I  Q  K  *  G  F  L  *  T  C  K  Y  L  L  K  L  K  S  F  T  Y  L  *  P  D  Y  S  K  K  Q  L  V  S  G  K  L  L  Q  L  L  R  T  T  I  W  F  T  G  I  S  V  L  *  L  T  N  A  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="15852" stop="15800"/>
                    <exon start="15605" stop="15431"/>
                    <exon start="15141" stop="15073"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>294</number_coding_nucleotides>
                  <number_encoded_amino_acids>98</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>YKLILRSTTGPIDLFLLSKQGRQHEDITIKHDKSMDSVSAAKKMDDAYPSPAHPCSLDSTDSKLSGVHKIVPSHNSIDDDYWLRSEEAVSATALWGIE*</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="28808" PGL_stop="22781"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="28808" e_stop="28565"/>
            <exon e_start="28410" e_stop="28283"/>
            <exon e_start="27273" e_stop="27165"/>
            <exon e_start="26726" e_stop="26645"/>
            <exon e_start="26574" e_stop="26504"/>
            <exon e_start="25826" e_stop="25785"/>
            <exon e_start="25502" e_stop="25378"/>
            <exon e_start="25074" e_stop="24981"/>
            <exon e_start="24826" e_stop="24760"/>
            <exon e_start="24647" e_stop="24460"/>
            <exon e_start="24377" e_stop="24272"/>
            <exon e_start="23724" e_stop="23638"/>
            <exon e_start="23260" e_stop="22781"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.972" e_score="0.996"/>
          <exon-intron don_prob="0.998" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.615" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.974" acc_prob="0.976" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.917" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.982" e_score="1.000"/>
          <exon-intron don_prob="0.875" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.729" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.984" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.145" acc_prob="0.995" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </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="28808" e_stop="28565" e_length="244"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.972">
            <gDNA_intron_boundary i_start="28564" i_stop="28411" i_length="154"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="28410" e_stop="28283" e_length="128"/>
          </exon>
          <intron i_serial="2" don_prob="0.998" acc_prob="1.000">
            <gDNA_intron_boundary i_start="28282" i_stop="27274" i_length="1009"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="27273" e_stop="27165" e_length="109"/>
          </exon>
          <intron i_serial="3" don_prob="0.995" acc_prob="1.000">
            <gDNA_intron_boundary i_start="27164" i_stop="26727" i_length="438"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="26726" e_stop="26645" e_length="82"/>
          </exon>
          <intron i_serial="4" don_prob="0.615" acc_prob="0.999">
            <gDNA_intron_boundary i_start="26644" i_stop="26575" i_length="70"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="26574" e_stop="26504" e_length="71"/>
          </exon>
          <intron i_serial="5" don_prob="0.974" acc_prob="0.976">
            <gDNA_intron_boundary i_start="26503" i_stop="25827" i_length="677"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="25826" e_stop="25785" e_length="42"/>
          </exon>
          <intron i_serial="6" don_prob="0.994" acc_prob="0.917">
            <gDNA_intron_boundary i_start="25784" i_stop="25503" i_length="282"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="25502" e_stop="25378" e_length="125"/>
          </exon>
          <intron i_serial="7" don_prob="1.000" acc_prob="0.982">
            <gDNA_intron_boundary i_start="25377" i_stop="25075" i_length="303"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="25074" e_stop="24981" e_length="94"/>
          </exon>
          <intron i_serial="8" don_prob="0.875" acc_prob="0.990">
            <gDNA_intron_boundary i_start="24980" i_stop="24827" i_length="154"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="24826" e_stop="24760" e_length="67"/>
          </exon>
          <intron i_serial="9" don_prob="0.998" acc_prob="0.729">
            <gDNA_intron_boundary i_start="24759" i_stop="24648" i_length="112"/>
          </intron>
          <exon e_serial="10" e_score="1.000">
            <gDNA_exon_boundary e_start="24647" e_stop="24460" e_length="188"/>
          </exon>
          <intron i_serial="10" don_prob="0.994" acc_prob="0.984">
            <gDNA_intron_boundary i_start="24459" i_stop="24378" i_length="82"/>
          </intron>
          <exon e_serial="11" e_score="1.000">
            <gDNA_exon_boundary e_start="24377" e_stop="24272" e_length="106"/>
          </exon>
          <intron i_serial="11" don_prob="0.989" acc_prob="0.995">
            <gDNA_intron_boundary i_start="24271" i_stop="23725" i_length="547"/>
          </intron>
          <exon e_serial="12" e_score="1.000">
            <gDNA_exon_boundary e_start="23724" e_stop="23638" e_length="87"/>
          </exon>
          <intron i_serial="12" don_prob="0.145" acc_prob="0.995">
            <gDNA_intron_boundary i_start="23637" i_stop="23261" i_length="377"/>
          </intron>
          <exon e_serial="13" e_score="0.998">
            <gDNA_exon_boundary e_start="23260" e_stop="22781" e_length="480"/>
          </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="28808" stop="28565"/>
              <exon start="28410" stop="28283"/>
              <exon start="27273" stop="27165"/>
              <exon start="26726" stop="26645"/>
              <exon start="26574" stop="26504"/>
              <exon start="25826" stop="25785"/>
              <exon start="25502" stop="25378"/>
              <exon start="25074" stop="24981"/>
              <exon start="24826" stop="24760"/>
              <exon start="24647" stop="24460"/>
              <exon start="24377" stop="24272"/>
              <exon start="23724" stop="23638"/>
              <exon start="23260" stop="22781"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745186" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="28738" stop="28565"/>
              <exon start="28410" stop="28283"/>
              <exon start="27273" stop="27165"/>
              <exon start="26726" stop="26645"/>
              <exon start="26574" stop="26567"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E323733" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="28737" stop="28565"/>
              <exon start="28410" stop="28283"/>
              <exon start="27273" stop="27165"/>
              <exon start="26726" stop="26645"/>
              <exon start="26574" stop="26511"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335225" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="28731" stop="28565"/>
              <exon start="28410" stop="28283"/>
              <exon start="27273" stop="27165"/>
              <exon start="26726" stop="26645"/>
              <exon start="26574" stop="26504"/>
              <exon start="25826" stop="25785"/>
              <exon start="25502" stop="25418"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E345277" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25826" stop="25785"/>
              <exon start="25502" stop="25378"/>
              <exon start="25074" stop="24981"/>
              <exon start="24826" stop="24760"/>
              <exon start="24647" stop="24496"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209925" 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>CATCGTTTAGGGTTCTAGGGTTTAAACTAACAGAGAACTGAAGCTTATAGTGTAACTTCCTTCTCTACTGCTTCATCTAATGCTTAAAGATTGAATTTTTAGCAGCAAAAATGTCTATTGAAGAAGCAGTTGATGAGGATTCGAAGCAAAATCATAATAGTAGATTAACTTATGAAGGTTGCAATGTATTGCTTGACATCAATGATGGCGACCGTTTAGTTTTTTCTCGTCTTACTGCTGCCTC : GACATTGAAAATTGGGAATAAGAAGTGTTCTCTTCAGCCTCTTATAGGTTGTCCATTCGGGTCTCTGTTTCAAGTGGAGCCGGGAAAAGAAGGAACCTTTTTGACTCGTTTTGTTGAGAATGCAGAAG : GTAACGGCCTTGAAGAAAAAGACGTGGATGGATCTAAAGACAACCGTGCGCTTGTTGATAATAATACTGCTCAGAGTCTCACTAGTGAAGATATTGACGAGATGCGAAA : GCAGGGAGCAAAAGGGGATGAAATAGTTGAAGCACTCATTGCAAACAGTGCAACTTTTGAGAAGAAGACATTATTTTCACAA : GATAAGTATAGGGTTAAGAAACAGAAGAAATATGCACCTCGAGTACTTTTGAGGCGCCCCTTTGCACGAAG : CATTTGTGAGGCCTACTTCAAGAAACATCCTGAAAAAATCGG : ATTCATGCGAGTGGATGCACTATCTCTACTGCTCTCCTTGGGGAATGTTACTGCAAATGCAGATGTACTTGTAGTGGACATGCTCAGTGGTATTCTTACTGGTGCTATTGCAGAACGACTTGGAG : GTACTGGTTATGTGTGCAATACTTATCGTGGATCATCACCATATCCTGTCGATATCACAAGGATGTTTAATTTAAGCGATGAAATCTGTAAAAG : AATCGTGCATGCATCACTGACCGACCTGAATTCATTTCAAACTGGAGCTTCAGTGTCTGAGGGTCAG : GAAGAAACCTTACCTGTCACTCATTCTGGTGGTCTAGACGAAGTTAGTGTGCCAGCTGAAGATGGTGGCATGGATGTAACACCTGAGAGAGTTTCTTCTCCAATAATCAAGCCTGTTAAATCTATAAAAGCAGGTCAGAAAGCAACCCTCGAGGCCATCAAGTCGTGGAAAGAAAACGGTTTTTCCAG : CCTAATAATTGCTGCTCCGGAACTGGACCCATGGGGCATTATTAAAGAAGTGCTTCCTCTTTTATCATTTTCAGCTCCTTTTGCTGTTTATCACCAGTATGCTCAG : CCCCTAGCTACGTGTATGCACAACCTGCAGATTGAGAAAATGGCGATTGGATTACAAATTTCTGAACCTTGGCTACGTGAATATCAG : GTACTCCCATCAAGAACCCATCCACATATGCAGATGAGCGCGTTTGGTGGTTATATACTAAGTGGCACGAAAATATCGAGCAGTGACTCCCTTACCAGCTCTAACTAGGATAAATTTTTTTGGCATCTCACTCTGCTTGGTTGTACATGTCGCTTGACGATACCATTTTCGTCTTTCGAGAATATTCCCTGTTAGAATAGATGTAGGGATTATCTTGTCTCTTTTCTGGGGCAGAAACAAGGTTACTCATGTTGTACTTTTATTCATTGATTGATGTATGCTTGCTTTTGTATGAGCAATTCTTCTAAATCAAAAGACTAAAGGGTCTTTTTCCTCTTACTTTATAAAGTATTTGAAGATTAAGTGGTAAATTGTAGAATTATATTGTTGTCTTTCTTGGATCAAGCAATTGAAGTCTGTTTTGTTGAAGAAATATAAAATATGTAATACAACATTAACAATTATTCTTCAACTCCAAAC</gDNA_template>
            <first_frame> H  R  L  G  F  *  G  L  N  *  Q  R  T  E  A  Y  S  V  T  S  F  S  T  A  S  S  N  A  *  R  L  N  F  *  Q  Q  K  C  L  L  K  K  Q  L  M  R  I  R  S  K  I  I  I  V  D  *  L  M  K  V  A  M  Y  C  L  T  S  M  M  A  T  V  *  F  F  L  V  L  L  L  P   : R  H  *  K  L  G  I  R  S  V  L  F  S  L  L  *  V  V  H  S  G  L  C  F  K  W  S  R  E  K  K  E  P  F  *  L  V  L  L  R  M  Q  K  :  V  T  A  L  K  K  K  T  W  M  D  L  K  T  T  V  R  L  L  I  I  I  L  L  R  V  S  L  V  K  I  L  T  R  C  E   : S  R  E  Q  K  G  M  K  *  L  K  H  S  L  Q  T  V  Q  L  L  R  R  R  H  Y  F  H  K :   I  S  I  G  L  R  N  R  R  N  M  H  L  E  Y  F  *  G  A  P  L  H  E   : A  F  V  R  P  T  S  R  N  I  L  K  K  S   : D  S  C  E  W  M  H  Y  L  Y  C  S  P  W  G  M  L  L  Q  M  Q  M  Y  L  *  W  T  C  S  V  V  F  L  L  V  L  L  Q  N  D  L  E  :  V  L  V  M  C  A  I  L  I  V  D  H  H  H  I  L  S  I  S  Q  G  C  L  I  *  A  M  K  S  V  K   : E  S  C  M  H  H  *  P  T  *  I  H  F  K  L  E  L  Q  C  L  R  V  R :   K  K  P  Y  L  S  L  I  L  V  V  *  T  K  L  V  C  Q  L  K  M  V  A  W  M  *  H  L  R  E  F  L  L  Q  *  S  S  L  L  N  L  *  K  Q  V  R  K  Q  P  S  R  P  S  S  R  G  K  K  T  V  F  P   : A  *  *  L  L  L  R  N  W  T  H  G  A  L  L  K  K  C  F  L  F  Y  H  F  Q  L  L  L  L  F  I  T  S  M  L  S :   P  *  L  R  V  C  T  T  C  R  L  R  K  W  R  L  D  Y  K  F  L  N  L  G  Y  V  N  I  R :   Y  S  H  Q  E  P  I  H  I  C  R  *  A  R  L  V  V  I  Y  *  V  A  R  K  Y  R  A  V  T  P  L  P  A  L  T  R  I  N  F  F  G  I  S  L  C  L  V  V  H  V  A  *  R  Y  H  F  R  L  S  R  I  F  P  V  R  I  D  V  G  I  I  L  S  L  F  W  G  R  N  K  V  T  H  V  V  L  L  F  I  D  *  C  M  L  A  F  V  *  A  I  L  L  N  Q  K  T  K  G  S  F  S  S  Y  F  I  K  Y  L  K  I  K  W  *  I  V  E  L  Y  C  C  L  S  W  I  K  Q  L  K  S  V  L  L  K  K  Y  K  I  C  N  T  T  L  T  I  I  L  Q  L  Q   </first_frame>
            <second_frame>  I  V  *  G  S  R  V  *  T  N  R  E  L  K  L  I  V  *  L  P  S  L  L  L  H  L  M  L  K  D  *  I  F  S  S  K  N  V  Y  *  R  S  S  *  *  G  F  E  A  K  S  *  *  *  I  N  L  *  R  L  Q  C  I  A  *  H  Q  *  W  R  P  F  S  F  F  S  S  Y  C  C  L  :  D  I  E  N  W  E  *  E  V  F  S  S  A  S  Y  R  L  S  I  R  V  S  V  S  S  G  A  G  K  R  R  N  L  F  D  S  F  C  *  E  C  R  R :   *  R  P  *  R  K  R  R  G  W  I  *  R  Q  P  C  A  C  *  *  *  Y  C  S  E  S  H  *  *  R  Y  *  R  D  A  K  :  A  G  S  K  R  G  *  N  S  *  S  T  H  C  K  Q  C  N  F  *  E  E  D  I  I  F  T   : R  *  V  *  G  *  E  T  E  E  I  C  T  S  S  T  F  E  A  P  L  C  T  K  :  H  L  *  G  L  L  Q  E  T  S  *  K  N  R  :  I  H  A  S  G  C  T  I  S  T  A  L  L  G  E  C  Y  C  K  C  R  C  T  C  S  G  H  A  Q  W  Y  S  Y  W  C  Y  C  R  T  T  W  R :   Y  W  L  C  V  Q  Y  L  S  W  I  I  T  I  S  C  R  Y  H  K  D  V  *  F  K  R  *  N  L  *  K  :  N  R  A  C  I  T  D  R  P  E  F  I  S  N  W  S  F  S  V  *  G  S   : G  R  N  L  T  C  H  S  F  W  W  S  R  R  S  *  C  A  S  *  R  W  W  H  G  C  N  T  *  E  S  F  F  S  N  N  Q  A  C  *  I  Y  K  S  R  S  E  S  N  P  R  G  H  Q  V  V  E  R  K  R  F  F  Q  :  P  N  N  C  C  S  G  T  G  P  M  G  H  Y  *  R  S  A  S  S  F  I  I  F  S  S  F  C  C  L  S  P  V  C  S   : A  P  S  Y  V  Y  A  Q  P  A  D  *  E  N  G  D  W  I  T  N  F  *  T  L  A  T  *  I  S   : G  T  P  I  K  N  P  S  T  Y  A  D  E  R  V  W  W  L  Y  T  K  W  H  E  N  I  E  Q  *  L  P  Y  Q  L  *  L  G  *  I  F  L  A  S  H  S  A  W  L  Y  M  S  L  D  D  T  I  F  V  F  R  E  Y  S  L  L  E  *  M  *  G  L  S  C  L  F  S  G  A  E  T  R  L  L  M  L  Y  F  Y  S  L  I  D  V  C  L  L  L  Y  E  Q  F  F  *  I  K  R  L  K  G  L  F  P  L  T  L  *  S  I  *  R  L  S  G  K  L  *  N  Y  I  V  V  F  L  G  S  S  N  *  S  L  F  C  *  R  N  I  K  Y  V  I  Q  H  *  Q  L  F  F  N  S  K  </second_frame>
            <third_frame>   S  F  R  V  L  G  F  K  L  T  E  N  *  S  L  *  C  N  F  L  L  Y  C  F  I  *  C  L  K  I  E  F  L  A  A  K  M  S  I  E  E  A  V  D  E  D  S  K  Q  N  H  N  S  R  L  T  Y  E  G  C  N  V  L  L  D  I  N  D  G  D  R  L  V  F  S  R  L  T  A  A  S :   T  L  K  I  G  N  K  K  C  S  L  Q  P  L  I  G  C  P  F  G  S  L  F  Q  V  E  P  G  K  E  G  T  F  L  T  R  F  V  E  N  A  E   : G  N  G  L  E  E  K  D  V  D  G  S  K  D  N  R  A  L  V  D  N  N  T  A  Q  S  L  T  S  E  D  I  D  E  M  R  K :   Q  G  A  K  G  D  E  I  V  E  A  L  I  A  N  S  A  T  F  E  K  K  T  L  F  S  Q  :  D  K  Y  R  V  K  K  Q  K  K  Y  A  P  R  V  L  L  R  R  P  F  A  R  S :   I  C  E  A  Y  F  K  K  H  P  E  K  I  G :   F  M  R  V  D  A  L  S  L  L  L  S  L  G  N  V  T  A  N  A  D  V  L  V  V  D  M  L  S  G  I  L  T  G  A  I  A  E  R  L  G   : G  T  G  Y  V  C  N  T  Y  R  G  S  S  P  Y  P  V  D  I  T  R  M  F  N  L  S  D  E  I  C  K  R :   I  V  H  A  S  L  T  D  L  N  S  F  Q  T  G  A  S  V  S  E  G  Q  :  E  E  T  L  P  V  T  H  S  G  G  L  D  E  V  S  V  P  A  E  D  G  G  M  D  V  T  P  E  R  V  S  S  P  I  I  K  P  V  K  S  I  K  A  G  Q  K  A  T  L  E  A  I  K  S  W  K  E  N  G  F  S  S :   L  I  I  A  A  P  E  L  D  P  W  G  I  I  K  E  V  L  P  L  L  S  F  S  A  P  F  A  V  Y  H  Q  Y  A  Q  :  P  L  A  T  C  M  H  N  L  Q  I  E  K  M  A  I  G  L  Q  I  S  E  P  W  L  R  E  Y  Q  :  V  L  P  S  R  T  H  P  H  M  Q  M  S  A  F  G  G  Y  I  L  S  G  T  K  I  S  S  S  D  S  L  T  S  S  N  *  D  K  F  F  W  H  L  T  L  L  G  C  T  C  R  L  T  I  P  F  S  S  F  E  N  I  P  C  *  N  R  C  R  D  Y  L  V  S  F  L  G  Q  K  Q  G  Y  S  C  C  T  F  I  H  *  L  M  Y  A  C  F  C  M  S  N  S  S  K  S  K  D  *  R  V  F  F  L  L  L  Y  K  V  F  E  D  *  V  V  N  C  R  I  I  L  L  S  F  L  D  Q  A  I  E  V  C  F  V  E  E  I  *  N  M  *  Y  N  I  N  N  Y  S  S  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="28728" stop="28565"/>
                    <exon start="28410" stop="28283"/>
                    <exon start="27273" stop="27165"/>
                    <exon start="26726" stop="26645"/>
                    <exon start="26574" stop="26504"/>
                    <exon start="25826" stop="25785"/>
                    <exon start="25502" stop="25378"/>
                    <exon start="25074" stop="24981"/>
                    <exon start="24826" stop="24760"/>
                    <exon start="24647" stop="24460"/>
                    <exon start="24377" stop="24272"/>
                    <exon start="23724" stop="23638"/>
                    <exon start="23260" stop="23153"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1368</number_coding_nucleotides>
                  <number_encoded_amino_acids>456</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CLKIEFLAAKMSIEEAVDEDSKQNHNSRLTYEGCNVLLDINDGDRLVFSRLTAASTLKIGNKKCSLQPLIGCPFGSLFQVEPGKEGTFLTRFVENAEGNGLEEKDVDGSKDNRALVDNNTAQSLTSEDIDEMRKQGAKGDEIVEALIANSATFEKKTLFSQDKYRVKKQKKYAPRVLLRRPFARSICEAYFKKHPEKIGFMRVDALSLLLSLGNVTANADVLVVDMLSGILTGAIAERLGGTGYVCNTYRGSSPYPVDITRMFNLSDEICKRIVHASLTDLNSFQTGASVSEGQEETLPVTHSGGLDEVSVPAEDGGMDVTPERVSSPIIKPVKSIKAGQKATLEAIKSWKENGFSSLIIAAPELDPWGIIKEVLPLLSFSAPFAVYHQYAQPLATCMHNLQIEKMAIGLQISEPWLREYQVLPSRTHPHMQMSAFGGYILSGTKISSSDSLTSSN*</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="32262" PGL_stop="36022"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="32262" e_stop="32612"/>
            <exon e_start="33084" e_stop="33335"/>
            <exon e_start="33438" e_stop="33538"/>
            <exon e_start="34791" e_stop="35669"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.975" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.976" e_score="1.000"/>
          <exon-only e_score="0.988"/>
        </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="32262" e_stop="32612" e_length="351"/>
          </exon>
          <intron i_serial="1" don_prob="0.975" acc_prob="0.998">
            <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="33084" e_stop="33335" e_length="252"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.994">
            <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="33438" e_stop="33538" e_length="101"/>
          </exon>
          <intron i_serial="3" don_prob="0.995" acc_prob="0.976">
            <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252"/>
          </intron>
          <exon e_serial="4" e_score="0.988">
            <gDNA_exon_boundary e_start="34791" e_stop="35669" e_length="879"/>
          </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="32262" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33473"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332403" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32262" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33472"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32280" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34850"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549403" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32281" stop="32612"/>
              <exon start="33084" stop="33319"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358035" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32301" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34929"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729692" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32527" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E201785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33207" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="35381"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33213" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34965"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292043" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33333" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="35151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266417" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34951" stop="35384"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372294" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34952" stop="35385"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372295" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34952" stop="35384"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35089" stop="35669"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E546632" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35259" stop="35669"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218112" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35292" stop="35669"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218036" 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>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG : GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG : GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG : TGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATTTTATTTATTTGTCCTTTTTACATA</gDNA_template>
            <first_frame> K  L  L  S  L  F  F  S  Y  E  K  E  N  F  F  N  N  C  S  V  F  F  P  F  S  C  S  V  F  N  G  T  V  N  I  F  T  R  N  I  R  K  K  S  T  F  K  E  E  E  K  T  T  K  T  E  *  G  E  T  K  A  A  I  F  M  G  S  I  Q  K  L  I  D  L  *  T  N  *  K  L  N  C  S  *  S  C  F  Q  K  P  S  S  F  C  C  C  C  C  S  C  W  S  L  L  *  V  E  F  L  *  L  H  M  Q  F  Q  :  G  C  G  T  W  Q  H  K  S  G  T  *  S  *  *  F  P  R  K  *  Q  F  R  P  R  N  S  S  S  K  Q  E  *  N  F  T  S  *  S  F  I  F  K  F  E  I  S  C  *  I  K  R  *  W  *  L  H  I  H  Y  F  I  K  R  N  A  I  S  *  A  I  W  M  L  *  V  S  H  D  S  R  S  *  Q  :  V  P  F  T  K  V  N  N  L  C  M  S  R  L  W  R  S  F  S  K  N  *  E  L  R  T  S  S  S  S  *  T  C  C :   V  R  V  G  S  G  R  F  K  P  *  H  S  G  N  N  L  Q  I  K  L  A  *  K  G  *  S  D  L  *  D  R  T  D  I  K  S  P  Q  H  Q  T  H  D  P  T  V  R  G  L  *  G  R  G  E  D  T  C  S  G  H  R  Q  E  K  P  K  M  C  S  *  W  K  *  A  A  *  I  L  L  H  E  P  Y  V  R  P  W  C  T  W  L  V  Q  L  V  W  L  G  T  R  L  W  S  L  H  Y  H  T  S  R  F  P  R  K  Q  N  *  W  S  P  H  N  C  *  *  W  A  G  P  R  L  S  W  *  R  Y  G  P  T  Q  G  H  D  R  V  S  G  H  C  W  *  S  Q  A  E  C  G  R  F  S  H  E  R  G  G  E  L  L  W  L  W  F  W  F  W  F  W  L  V  C  Y  W  L  Y  H  I  Q  F  S  S  W  T  C  R  D  L  L  K  S  R  G  I  I  R  I  *  S  K  G  Y  T  S  M  L  C  C  D  I  R  S  I  G  I  L  G  L  M  F  F  F  F  *  F  V  L  E  L  F  V  R  F  S  L  F  F  S  F  L  L  C  P  *  I  Y  V  T  N  F  K  L  V  K  K  K  L  *  H  P  *  G  N  A  D  P  T  M  I  F  V  N  I  Y  L  F  Y  L  F  V  L  F  T   </first_frame>
            <second_frame>  N  F  S  L  S  F  S  L  M  K  K  R  T  S  S  T  I  A  L  F  F  S  H  F  L  A  L  F  L  M  A  L  L  T  F  L  P  E  T  S  E  K  N  Q  P  S  K  R  R  K  K  Q  Q  K  Q  N  K  E  K  Q  K  Q  P  S  S  W  D  Q  F  K  N  L  L  T  C  K  Q  I  E  N  S  T  V  H  D  P  A  S  K  N  P  P  P  S  A  A  A  A  A  P  A  G  A  Y  S  K  L  S  S  C  S  S  I  C  S  F  R :   D  V  V  H  G  N  T  R  V  V  H  R  A  D  N  S  P  E  S  S  S  L  G  Q  E  T  R  L  L  S  K  N  K  T  S  H  H  D  P  S  S  S  S  S  R  S  L  A  R  S  N  G  N  G  S  S  T  Y  T  T  S  S  R  G  M  Q  F  R  K  L  S  G  C  Y  E  C  H  M  I  V  D  P  S  R :   Y  P  L  P  R  S  T  I  C  A  C  P  D  C  G  E  V  F  P  K  I  E  S  L  E  H  H  Q  A  V  K  H  A   : V  S  E  L  G  P  E  D  S  S  R  N  I  V  E  I  I  F  K  S  S  W  L  K  K  D  N  P  I  C  K  I  E  R  I  L  K  V  H  N  T  K  R  T  I  Q  R  F  E  D  C  R  D  A  V  K  I  H  A  V  A  T  G  K  K  N  P  R  C  A  A  D  G  N  E  L  L  R  F  Y  C  T  S  L  T  C  V  L  G  A  R  G  S  S  S  L  C  G  S  V  P  G  C  G  V  C  T  T  I  R  H  G  F  Q  G  N  K  T  S  G  V  R  T  T  A  S  S  G  R  A  H  D  C  L  G  S  G  M  A  R  R  R  A  M  I  V  C  R  V  I  A  G  R  V  K  Q  N  V  G  A  S  P  T  K  E  E  E  N  C  S  G  S  G  S  G  S  G  S  G  L  S  A  T  G  S  T  I  Y  N  S  V  A  G  H  V  G  I  Y  S  N  L  E  E  L  Y  V  F  N  P  R  A  I  L  P  C  F  V  V  I  Y  E  A  L  E  S  *  A  *  C  F  F  F  F  N  L  Y  L  S  C  L  Y  G  L  V  C  F  F  L  F  C  C  V  L  K  F  M  *  L  I  S  S  *  L  K  K  S  C  N  T  R  E  V  M  L  I  Q  L  *  F  L  *  I  F  I  Y  F  I  Y  L  S  F  L  H  </second_frame>
            <third_frame>   T  S  L  S  L  F  L  L  *  K  R  E  L  L  Q  Q  L  L  C  F  F  P  I  F  L  L  C  F  *  W  H  C  *  H  F  Y  Q  K  H  Q  K  K  I  N  L  Q  R  G  G  K  N  N  K  N  R  I  R  R  N  K  S  S  H  L  H  G  I  N  S  K  T  Y  *  L  V  N  K  L  K  T  Q  L  F  M  I  L  L  P  K  T  L  L  L  L  L  L  L  L  L  L  L  E  L  T  L  S  *  V  L  V  A  P  Y  A  V  S   : G  M  W  Y  M  A  T  Q  E  W  Y  I  E  L  I  I  P  Q  K  V  A  V  *  A  K  K  L  V  F  *  A  R  I  K  L  H  I  M  I  L  H  L  Q  V  R  D  L  L  L  D  Q  T  V  M  V  A  P  H  T  L  L  H  Q  E  E  C  N  F  V  S  Y  L  D  V  M  S  V  T  *  *  *  I  L  A   : G  T  L  Y  Q  G  Q  Q  F  V  H  V  Q  I  V  E  K  F  F  Q  K  L  R  A  *  N  I  I  K  Q  L  N  M  L  :  C  Q  S  W  V  R  K  I  Q  A  V  T  *  W  K  *  S  S  N  Q  A  G  L  K  R  I  I  R  S  V  R  S  N  G  Y  *  K  S  T  T  P  N  A  R  S  N  G  S  R  T  V  G  T  R  *  R  Y  M  Q  W  P  Q  A  R  K  T  Q  D  V  Q  L  M  E  M  S  C  L  D  F  T  A  R  A  L  R  A  S  L  V  H  V  A  R  P  A  C  V  A  R  Y  P  V  V  E  F  A  L  P  Y  V  T  V  S  K  E  T  K  L  V  E  S  A  Q  L  L  V  V  G  G  P  T  I  V  L  V  A  V  W  P  D  A  G  P  *  S  C  V  G  S  L  L  V  E  S  S  R  M  W  A  L  L  P  R  K  R  R  R  I  A  L  A  L  V  L  V  L  V  L  A  C  L  L  L  A  L  P  Y  T  I  Q  *  L  D  M  *  G  F  T  Q  I  S  R  N  Y  T  Y  L  I  Q  G  L  Y  F  H  A  L  L  *  Y  T  K  H  W  N  L  R  L  N  V  F  F  F  L  I  C  T  *  A  V  C  T  V  *  F  V  F  F  F  F  V  V  S  L  N  L  C  N  *  F  Q  V  S  *  K  K  V  V  T  P  V  R  *  C  *  S  N  Y  D  F  C  K  Y  L  F  I  L  F  I  C  P  F  Y  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32263" stop="32612"/>
                    <exon start="33084" stop="33335"/>
                    <exon start="33438" stop="33538"/>
                    <exon start="34791" stop="35467"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1377</number_coding_nucleotides>
                  <number_encoded_amino_acids>459</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NFSLSFSLMKKRTSSTIALFFSHFLALFLMALLTFLPETSEKNQPSKRRKKQQKQNKEKQKQPSSWDQFKNLLTCKQIENSTVHDPASKNPPPSAAAAAPAGAYSKLSSCSSICSFRDVVHGNTRVVHRADNSPESSSLGQETRLLSKNKTSHHDPSSSSSRSLARSNGNGSSTYTTSSRGMQFRKLSGCYECHMIVDPSRYPLPRSTICACPDCGEVFPKIESLEHHQAVKHAVSELGPEDSSRNIVEIIFKSSWLKKDNPICKIERILKVHNTKRTIQRFEDCRDAVKIHAVATGKKNPRCAADGNELLRFYCTSLTCVLGARGSSSLCGSVPGCGVCTTIRHGFQGNKTSGVRTTASSGRAHDCLGSGMARRRAMIVCRVIAGRVKQNVGASPTKEEENCSGSGSGSGSGLSATGSTIYNSVAGHVGIYSNLEELYVFNPRAILPCFVVIYEALES*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="32262" e_stop="32612"/>
            <exon e_start="33084" e_stop="33335"/>
            <exon e_start="33438" e_stop="33538"/>
            <exon e_start="34791" e_stop="35645"/>
            <exon e_start="36003" e_stop="36022"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.975" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.976" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.953" e_score="0.992"/>
          <exon-only e_score="0.650"/>
        </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="32262" e_stop="32612" e_length="351"/>
          </exon>
          <intron i_serial="1" don_prob="0.975" acc_prob="0.998">
            <gDNA_intron_boundary i_start="32613" i_stop="33083" i_length="471"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="33084" e_stop="33335" e_length="252"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.994">
            <gDNA_intron_boundary i_start="33336" i_stop="33437" i_length="102"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="33438" e_stop="33538" e_length="101"/>
          </exon>
          <intron i_serial="3" don_prob="0.995" acc_prob="0.976">
            <gDNA_intron_boundary i_start="33539" i_stop="34790" i_length="1252"/>
          </intron>
          <exon e_serial="4" e_score="0.992">
            <gDNA_exon_boundary e_start="34791" e_stop="35645" e_length="855"/>
          </exon>
          <intron i_serial="4" don_prob="0.000" acc_prob="0.953">
            <gDNA_intron_boundary i_start="35646" i_stop="36002" i_length="357"/>
          </intron>
          <exon e_serial="5" e_score="0.650">
            <gDNA_exon_boundary e_start="36003" e_stop="36022" 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="32262" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33473"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332403" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32262" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33472"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E332209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32280" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34850"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E549403" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32281" stop="32612"/>
              <exon start="33084" stop="33319"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E358035" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32301" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34929"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729692" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32527" stop="32612"/>
              <exon start="33084" stop="33335"/>
              <exon start="33438" stop="33538"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E201785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33207" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="35381"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33213" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="34965"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292043" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33333" stop="33335"/>
              <exon start="33438" stop="33538"/>
              <exon start="34791" stop="35151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E266417" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34951" stop="35384"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372294" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34952" stop="35385"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372295" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34952" stop="35384"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="34981" stop="35645"/>
              <exon start="36003" stop="36022"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E540782" 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>AAACTTCTCTCTCTCTTTTTCTCTTATGAAAAAGAGAACTTCTTCAACAATTGCTCTGTTTTTTTCCCATTTTCTTGCTCTGTTTTTAATGGCACTGTTAACATTTTTACCAGAAACATCAGAAAAAAATCAACCTTCAAAGAGGAGGAAAAAACAACAAAAACAGAATAAGGAGAAACAAAAGCAGCCATCTTCATGGGATCAATTCAAAAACTTATTGACTTGTAAACAAATTGAAAACTCAACTGTTCATGATCCTGCTTCCAAAAACCCTCCTCCTTCTGCTGCTGCTGCTGCTCCTGCTGGAGCTTACTCTAAGTTGAGTTCTTGTAGCTCCATATGCAGTTTCAG : GGATGTGGTACATGGCAACACAAGAGTGGTACATAGAGCTGATAATTCCCCAGAAAGTAGCAGTTTAGGCCAAGAAACTCGTCTTCTAAGCAAGAATAAAACTTCACATCATGATCCTTCATCTTCAAGTTCGAGATCTCTTGCTAGATCAAACGGTAATGGTAGCTCCACATACACTACTTCATCAAGAGGAATGCAATTTCGTAAGCTATCTGGATGTTATGAGTGTCACATGATAGTAGATCCTAGCAG : GTACCCTTTACCAAGGTCAACAATTTGTGCATGTCCAGATTGTGGAGAAGTTTTTCCAAAAATTGAGAGCTTAGAACATCATCAAGCAGTTAAACATGCTG : TGTCAGAGTTGGGTCCGGAAGATTCAAGCCGTAACATAGTGGAAATAATCTTCAAATCAAGCTGGCTTAAAAAGGATAATCCGATCTGTAAGATCGAACGGATATTAAAAGTCCACAACACCAAACGCACGATCCAACGGTTCGAGGACTGTAGGGACGCGGTGAAGATACATGCAGTGGCCACAGGCAAGAAAAACCCAAGATGTGCAGCTGATGGAAATGAGCTGCTTAGATTTTACTGCACGAGCCTTACGTGCGTCCTTGGTGCACGTGGCTCGTCCAGCTTGTGTGGCTCGGTACCCGGTTGTGGAGTTTGCACTACCATACGTCACGGTTTCCAAGGAAACAAAACTAGTGGAGTCCGCACAACTGCTAGTAGTGGGCGGGCCCACGATTGTCTTGGTAGCGGTATGGCCCGACGCAGGGCCATGATCGTGTGTCGGGTCATTGCTGGTAGAGTCAAGCAGAATGTGGGCGCTTCTCCCACGAAAGAGGAGGAGAATTGCTCTGGCTCTGGTTCTGGTTCTGGTTCTGGCTTGTCTGCTACTGGCTCTACCATATACAATTCAGTAGCTGGACATGTAGGGATTTACTCAAATCTCGAGGAATTATACGTATTTAATCCAAGGGCTATACTTCCATGCTTTGTTGTGATATACGAAGCATTGGAATCTTAGGCTTAATGTTTTTTTTTTTTTAATTTGTACTTGAGCTGTTTGTACGGTTTAGTTTGTTTTTTTCTTTTTTGTTGTGTCCTTAAATTTATGTAACTAATTTCAAGTTAGTTAAAAAAAAGTTGTAACACCCGTGAGGTAATGCTGATCCAACTATGATTTTTGTAAATATTTATTTATT : CTGCAAGAAATAAAGGTAAA</gDNA_template>
            <first_frame> K  L  L  S  L  F  F  S  Y  E  K  E  N  F  F  N  N  C  S  V  F  F  P  F  S  C  S  V  F  N  G  T  V  N  I  F  T  R  N  I  R  K  K  S  T  F  K  E  E  E  K  T  T  K  T  E  *  G  E  T  K  A  A  I  F  M  G  S  I  Q  K  L  I  D  L  *  T  N  *  K  L  N  C  S  *  S  C  F  Q  K  P  S  S  F  C  C  C  C  C  S  C  W  S  L  L  *  V  E  F  L  *  L  H  M  Q  F  Q  :  G  C  G  T  W  Q  H  K  S  G  T  *  S  *  *  F  P  R  K  *  Q  F  R  P  R  N  S  S  S  K  Q  E  *  N  F  T  S  *  S  F  I  F  K  F  E  I  S  C  *  I  K  R  *  W  *  L  H  I  H  Y  F  I  K  R  N  A  I  S  *  A  I  W  M  L  *  V  S  H  D  S  R  S  *  Q  :  V  P  F  T  K  V  N  N  L  C  M  S  R  L  W  R  S  F  S  K  N  *  E  L  R  T  S  S  S  S  *  T  C  C :   V  R  V  G  S  G  R  F  K  P  *  H  S  G  N  N  L  Q  I  K  L  A  *  K  G  *  S  D  L  *  D  R  T  D  I  K  S  P  Q  H  Q  T  H  D  P  T  V  R  G  L  *  G  R  G  E  D  T  C  S  G  H  R  Q  E  K  P  K  M  C  S  *  W  K  *  A  A  *  I  L  L  H  E  P  Y  V  R  P  W  C  T  W  L  V  Q  L  V  W  L  G  T  R  L  W  S  L  H  Y  H  T  S  R  F  P  R  K  Q  N  *  W  S  P  H  N  C  *  *  W  A  G  P  R  L  S  W  *  R  Y  G  P  T  Q  G  H  D  R  V  S  G  H  C  W  *  S  Q  A  E  C  G  R  F  S  H  E  R  G  G  E  L  L  W  L  W  F  W  F  W  F  W  L  V  C  Y  W  L  Y  H  I  Q  F  S  S  W  T  C  R  D  L  L  K  S  R  G  I  I  R  I  *  S  K  G  Y  T  S  M  L  C  C  D  I  R  S  I  G  I  L  G  L  M  F  F  F  F  *  F  V  L  E  L  F  V  R  F  S  L  F  F  S  F  L  L  C  P  *  I  Y  V  T  N  F  K  L  V  K  K  K  L  *  H  P  *  G  N  A  D  P  T  M  I  F  V  N  I  Y  L  F :   C  K  K  *  R  *  </first_frame>
            <second_frame>  N  F  S  L  S  F  S  L  M  K  K  R  T  S  S  T  I  A  L  F  F  S  H  F  L  A  L  F  L  M  A  L  L  T  F  L  P  E  T  S  E  K  N  Q  P  S  K  R  R  K  K  Q  Q  K  Q  N  K  E  K  Q  K  Q  P  S  S  W  D  Q  F  K  N  L  L  T  C  K  Q  I  E  N  S  T  V  H  D  P  A  S  K  N  P  P  P  S  A  A  A  A  A  P  A  G  A  Y  S  K  L  S  S  C  S  S  I  C  S  F  R :   D  V  V  H  G  N  T  R  V  V  H  R  A  D  N  S  P  E  S  S  S  L  G  Q  E  T  R  L  L  S  K  N  K  T  S  H  H  D  P  S  S  S  S  S  R  S  L  A  R  S  N  G  N  G  S  S  T  Y  T  T  S  S  R  G  M  Q  F  R  K  L  S  G  C  Y  E  C  H  M  I  V  D  P  S  R :   Y  P  L  P  R  S  T  I  C  A  C  P  D  C  G  E  V  F  P  K  I  E  S  L  E  H  H  Q  A  V  K  H  A   : V  S  E  L  G  P  E  D  S  S  R  N  I  V  E  I  I  F  K  S  S  W  L  K  K  D  N  P  I  C  K  I  E  R  I  L  K  V  H  N  T  K  R  T  I  Q  R  F  E  D  C  R  D  A  V  K  I  H  A  V  A  T  G  K  K  N  P  R  C  A  A  D  G  N  E  L  L  R  F  Y  C  T  S  L  T  C  V  L  G  A  R  G  S  S  S  L  C  G  S  V  P  G  C  G  V  C  T  T  I  R  H  G  F  Q  G  N  K  T  S  G  V  R  T  T  A  S  S  G  R  A  H  D  C  L  G  S  G  M  A  R  R  R  A  M  I  V  C  R  V  I  A  G  R  V  K  Q  N  V  G  A  S  P  T  K  E  E  E  N  C  S  G  S  G  S  G  S  G  S  G  L  S  A  T  G  S  T  I  Y  N  S  V  A  G  H  V  G  I  Y  S  N  L  E  E  L  Y  V  F  N  P  R  A  I  L  P  C  F  V  V  I  Y  E  A  L  E  S  *  A  *  C  F  F  F  F  N  L  Y  L  S  C  L  Y  G  L  V  C  F  F  L  F  C  C  V  L  K  F  M  *  L  I  S  S  *  L  K  K  S  C  N  T  R  E  V  M  L  I  Q  L  *  F  L  *  I  F  I  Y   : S  A  R  N  K  G  K </second_frame>
            <third_frame>   T  S  L  S  L  F  L  L  *  K  R  E  L  L  Q  Q  L  L  C  F  F  P  I  F  L  L  C  F  *  W  H  C  *  H  F  Y  Q  K  H  Q  K  K  I  N  L  Q  R  G  G  K  N  N  K  N  R  I  R  R  N  K  S  S  H  L  H  G  I  N  S  K  T  Y  *  L  V  N  K  L  K  T  Q  L  F  M  I  L  L  P  K  T  L  L  L  L  L  L  L  L  L  L  L  E  L  T  L  S  *  V  L  V  A  P  Y  A  V  S   : G  M  W  Y  M  A  T  Q  E  W  Y  I  E  L  I  I  P  Q  K  V  A  V  *  A  K  K  L  V  F  *  A  R  I  K  L  H  I  M  I  L  H  L  Q  V  R  D  L  L  L  D  Q  T  V  M  V  A  P  H  T  L  L  H  Q  E  E  C  N  F  V  S  Y  L  D  V  M  S  V  T  *  *  *  I  L  A   : G  T  L  Y  Q  G  Q  Q  F  V  H  V  Q  I  V  E  K  F  F  Q  K  L  R  A  *  N  I  I  K  Q  L  N  M  L  :  C  Q  S  W  V  R  K  I  Q  A  V  T  *  W  K  *  S  S  N  Q  A  G  L  K  R  I  I  R  S  V  R  S  N  G  Y  *  K  S  T  T  P  N  A  R  S  N  G  S  R  T  V  G  T  R  *  R  Y  M  Q  W  P  Q  A  R  K  T  Q  D  V  Q  L  M  E  M  S  C  L  D  F  T  A  R  A  L  R  A  S  L  V  H  V  A  R  P  A  C  V  A  R  Y  P  V  V  E  F  A  L  P  Y  V  T  V  S  K  E  T  K  L  V  E  S  A  Q  L  L  V  V  G  G  P  T  I  V  L  V  A  V  W  P  D  A  G  P  *  S  C  V  G  S  L  L  V  E  S  S  R  M  W  A  L  L  P  R  K  R  R  R  I  A  L  A  L  V  L  V  L  V  L  A  C  L  L  L  A  L  P  Y  T  I  Q  *  L  D  M  *  G  F  T  Q  I  S  R  N  Y  T  Y  L  I  Q  G  L  Y  F  H  A  L  L  *  Y  T  K  H  W  N  L  R  L  N  V  F  F  F  L  I  C  T  *  A  V  C  T  V  *  F  V  F  F  F  F  V  V  S  L  N  L  C  N  *  F  Q  V  S  *  K  K  V  V  T  P  V  R  *  C  *  S  N  Y  D  F  C  K  Y  L  F  I  :  L  Q  E  I  K  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32263" stop="32612"/>
                    <exon start="33084" stop="33335"/>
                    <exon start="33438" stop="33538"/>
                    <exon start="34791" stop="35467"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1377</number_coding_nucleotides>
                  <number_encoded_amino_acids>459</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NFSLSFSLMKKRTSSTIALFFSHFLALFLMALLTFLPETSEKNQPSKRRKKQQKQNKEKQKQPSSWDQFKNLLTCKQIENSTVHDPASKNPPPSAAAAAPAGAYSKLSSCSSICSFRDVVHGNTRVVHRADNSPESSSLGQETRLLSKNKTSHHDPSSSSSRSLARSNGNGSSTYTTSSRGMQFRKLSGCYECHMIVDPSRYPLPRSTICACPDCGEVFPKIESLEHHQAVKHAVSELGPEDSSRNIVEIIFKSSWLKKDNPICKIERILKVHNTKRTIQRFEDCRDAVKIHAVATGKKNPRCAADGNELLRFYCTSLTCVLGARGSSSLCGSVPGCGVCTTIRHGFQGNKTSGVRTTASSGRAHDCLGSGMARRRAMIVCRVIAGRVKQNVGASPTKEEENCSGSGSGSGSGLSATGSTIYNSVAGHVGIYSNLEELYVFNPRAILPCFVVIYEALES*</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="45321" PGL_stop="49405"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="45321" e_stop="45900"/>
            <exon e_start="46511" e_stop="46661"/>
            <exon e_start="46747" e_stop="46929"/>
            <exon e_start="47493" e_stop="47567"/>
            <exon e_start="47666" e_stop="47821"/>
            <exon e_start="47908" e_stop="48003"/>
            <exon e_start="48106" e_stop="48239"/>
            <exon e_start="48335" e_stop="48416"/>
            <exon e_start="48821" e_stop="49405"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.984" e_score="0.964"/>
          <exon-intron don_prob="0.939" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.818" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.968" acc_prob="0.929" e_score="1.000"/>
          <exon-intron don_prob="0.966" acc_prob="0.828" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.877" e_score="1.000"/>
          <exon-intron don_prob="0.988" acc_prob="0.982" e_score="0.993"/>
          <exon-intron don_prob="0.997" acc_prob="0.980" 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="0.964">
            <gDNA_exon_boundary e_start="45321" e_stop="45900" e_length="580"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.984">
            <gDNA_intron_boundary i_start="45901" i_stop="46510" i_length="610"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="46511" e_stop="46661" e_length="151"/>
          </exon>
          <intron i_serial="2" don_prob="0.939" acc_prob="0.997">
            <gDNA_intron_boundary i_start="46662" i_stop="46746" i_length="85"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="46747" e_stop="46929" e_length="183"/>
          </exon>
          <intron i_serial="3" don_prob="0.818" acc_prob="0.995">
            <gDNA_intron_boundary i_start="46930" i_stop="47492" i_length="563"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="47493" e_stop="47567" e_length="75"/>
          </exon>
          <intron i_serial="4" don_prob="0.968" acc_prob="0.929">
            <gDNA_intron_boundary i_start="47568" i_stop="47665" i_length="98"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="47666" e_stop="47821" e_length="156"/>
          </exon>
          <intron i_serial="5" don_prob="0.966" acc_prob="0.828">
            <gDNA_intron_boundary i_start="47822" i_stop="47907" i_length="86"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="47908" e_stop="48003" e_length="96"/>
          </exon>
          <intron i_serial="6" don_prob="1.000" acc_prob="0.877">
            <gDNA_intron_boundary i_start="48004" i_stop="48105" i_length="102"/>
          </intron>
          <exon e_serial="7" e_score="0.993">
            <gDNA_exon_boundary e_start="48106" e_stop="48239" e_length="134"/>
          </exon>
          <intron i_serial="7" don_prob="0.988" acc_prob="0.982">
            <gDNA_intron_boundary i_start="48240" i_stop="48334" i_length="95"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="48335" e_stop="48416" e_length="82"/>
          </exon>
          <intron i_serial="8" don_prob="0.997" acc_prob="0.980">
            <gDNA_intron_boundary i_start="48417" i_stop="48820" i_length="404"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="48821" e_stop="49405" e_length="585"/>
          </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="45321" stop="45900"/>
              <exon start="46511" stop="46661"/>
              <exon start="46747" stop="46757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E730175" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45537" stop="45900"/>
              <exon start="46511" stop="46661"/>
              <exon start="46747" stop="46782"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257079" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="45598" stop="45900"/>
              <exon start="46511" stop="46661"/>
              <exon start="46747" stop="46929"/>
              <exon start="47493" stop="47567"/>
              <exon start="47666" stop="47821"/>
              <exon start="47908" stop="48003"/>
              <exon start="48106" stop="48239"/>
              <exon start="48335" stop="48416"/>
              <exon start="48821" stop="49405"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745064" 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>CAGAAAAGCTGTAATGCTCTCTGCTACGGTTTAGTTTCAGCACTATGAAAGTAACGAACAGTTTTATAGTTAGCCAAATTCTTATATTCTTTCATTAAATCCTCACATCATTATTTTATTGAAATTCAACTGTTTTTCATCATTATTTTATTTGAAATTCAACTGTTCAAACAAACTTTTTTTTTTTTTCAAGTGTTAAAAGTTGAGATCTTCAAACACTCTGTTTCAACGTCACCATTTATTGTCTCTCTTTTTTTCTCCGTCACACAATTGAATTGATCTCACTGTTACCTAAAATGTCGGTCACCGTTAGCTCGCCGGCCGTCCGATCCTTCCATGTTTCACGATCACCTCATAAAACGATCTCTAGGCCACGTGTCATTATATCTGCCGTCCGATCTACTGACAGCTTAGGAGTAGCACCAATTTTGACGAAGTTGCAGAAAGATTGTGCTACTCCTCTTCCAGTTTTGCGCCACGTGGCGGATGCAATGGCCGATGATATGAGGGCCGGGCTTGCCGTCGACGGCGGCAGTGATCTGAAGATGATCCTTAGTTATGTCGACACTCTACCAACTGG : GAATGAGAAAGGCTTGTTTTATGCGTTGGACCTTGGTGGTACAAATTTCCGGGTGCTAAGGGTGCAGCTAGGTGGTAAAGAAGAGCGTGTAGTCGCCACTGAGTTTGAGCAAGTCTCTATACCCCAAGAACTGATGTTTGCTACCTCCGAG : GAGCTTTTCGATTTCATAGCTTCTGCGCTAGGAAAATTTGCACAAAAGGAAGGTGGTAATTTTGAGTTGCAACAGGGACGGACAAGGGAAATAGGATTCACGTTTTCTTTTCCGGTGAAACAGACTTCAATAAGAACTGGAATCCTAATCAAATGGACAAAAGGTTTTGCTGTCTCTGGAACT : GCGGGAAAAGATGTTGTTGCTTGTCTGAATGAAGCCATGGAGAGGCGGGGAATGGATATGCAAGTGTCTGCCCTG : GTCAATGACACTGTGGGAACACTTGCCGGAGCAAGATACTGGGATGATGATGCCATGGTTGCTGTCATTCTTGGGACTGGAACCAATGCTTGCTATGTAGAACGTGTGGATGCTATTCCTAAGCTGGCAAAAAGGATGTCTAAGTCTCCAATAACG : ATTGTGAATACCGAATGGGGAGCTTTCTCAAATGGCCTTCCTTTAACTGAGTTTGATAGAGAAATGGATGCCGAGAGCATTAACCCTGGTGAGCAG : ATTTTTGAAAAGACCATCTCTGGTATGTACCTTGGGGAAATTGTGAGACGGGTGCTGGTCAAAATGGCCAAGGTTGGGGGCTTATTTGGTAGCAGCTATGTTCCGGAAAAGCTAGTCACTCCATTTGTGCTGAG : GACACCTGATATATGTGCCATGCAGCAGGATACATCAATAGATCTTGAAGCTGTTGAGTCTGTCCTCTATGATGTAGCTGGG : GTAAAATCCGATCTAAGTGCAAGGAAAACAGTCGTGGACATTTGCGATACTATTGCAAAACGAGGGGGTCGTCTAGCTGGTGCAGGAATTGTTGGTATATTACAGAAAATGGAGGAAGATTCTAAAGGTCTCATCTTTGGTAAAAGAACAGTTGTAGCAATGGATGGAGGCTTATATGAGCACTATCCTCAGTACAGAGGATACCTCCAAGAAGCTGTCACAGAGCTACTAGGCTCGGAAATTTCGAAAAATGTAGTGATAGAACATTCAAAAGATGGATCTGGTATTGGAGCTGCATTATTAGCTGCTGCAAATTCAAAGTATGAACATGATGATTAAGGGAAAAGCTAAATTTCATGTGTTCAAAGGTTTGCTTGAGGAAAAATACATGAGCATTTGTAATTTAGAATGTTCTAAAGAAGGATTGATGATTGGATTTATAGAGGCTCTTGTTTGTGATGCCATTTTTTGTACTCCCATTAATGAAGTACGAAGAAGTGAGGATTTATATAGCCAACCCCAATTTATTTGGAATCGAGGCGTAGTTGTAATTGTATTATATGCAGCACTGACTTATTTATGTGA</gDNA_template>
            <first_frame> Q  K  S  C  N  A  L  C  Y  G  L  V  S  A  L  *  K  *  R  T  V  L  *  L  A  K  F  L  Y  S  F  I  K  S  S  H  H  Y  F  I  E  I  Q  L  F  F  I  I  I  L  F  E  I  Q  L  F  K  Q  T  F  F  F  F  Q  V  L  K  V  E  I  F  K  H  S  V  S  T  S  P  F  I  V  S  L  F  F  S  V  T  Q  L  N  *  S  H  C  Y  L  K  C  R  S  P  L  A  R  R  P  S  D  P  S  M  F  H  D  H  L  I  K  R  S  L  G  H  V  S  L  Y  L  P  S  D  L  L  T  A  *  E  *  H  Q  F  *  R  S  C  R  K  I  V  L  L  L  F  Q  F  C  A  T  W  R  M  Q  W  P  M  I  *  G  P  G  L  P  S  T  A  A  V  I  *  R  *  S  L  V  M  S  T  L  Y  Q  L   : G  M  R  K  A  C  F  M  R  W  T  L  V  V  Q  I  S  G  C  *  G  C  S  *  V  V  K  K  S  V  *  S  P  L  S  L  S  K  S  L  Y  P  K  N  *  C  L  L  P  P  R :   S  F  S  I  S  *  L  L  R  *  E  N  L  H  K  R  K  V  V  I  L  S  C  N  R  D  G  Q  G  K  *  D  S  R  F  L  F  R  *  N  R  L  Q  *  E  L  E  S  *  S  N  G  Q  K  V  L  L  S  L  E  L :   R  E  K  M  L  L  L  V  *  M  K  P  W  R  G  G  E  W  I  C  K  C  L  P  W :   S  M  T  L  W  E  H  L  P  E  Q  D  T  G  M  M  M  P  W  L  L  S  F  L  G  L  E  P  M  L  A  M  *  N  V  W  M  L  F  L  S  W  Q  K  G  C  L  S  L  Q  *  R :   L  *  I  P  N  G  E  L  S  Q  M  A  F  L  *  L  S  L  I  E  K  W  M  P  R  A  L  T  L  V  S  R :   F  L  K  R  P  S  L  V  C  T  L  G  K  L  *  D  G  C  W  S  K  W  P  R  L  G  A  Y  L  V  A  A  M  F  R  K  S  *  S  L  H  L  C  *   : G  H  L  I  Y  V  P  C  S  R  I  H  Q  *  I  L  K  L  L  S  L  S  S  M  M  *  L  G :   *  N  P  I  *  V  Q  G  K  Q  S  W  T  F  A  I  L  L  Q  N  E  G  V  V  *  L  V  Q  E  L  L  V  Y  Y  R  K  W  R  K  I  L  K  V  S  S  L  V  K  E  Q  L  *  Q  W  M  E  A  Y  M  S  T  I  L  S  T  E  D  T  S  K  K  L  S  Q  S  Y  *  A  R  K  F  R  K  M  *  *  *  N  I  Q  K  M  D  L  V  L  E  L  H  Y  *  L  L  Q  I  Q  S  M  N  M  M  I  K  G  K  A  K  F  H  V  F  K  G  L  L  E  E  K  Y  M  S  I  C  N  L  E  C  S  K  E  G  L  M  I  G  F  I  E  A  L  V  C  D  A  I  F  C  T  P  I  N  E  V  R  R  S  E  D  L  Y  S  Q  P  Q  F  I  W  N  R  G  V  V  V  I  V  L  Y  A  A  L  T  Y  L  C   </first_frame>
            <second_frame>  R  K  A  V  M  L  S  A  T  V  *  F  Q  H  Y  E  S  N  E  Q  F  Y  S  *  P  N  S  Y  I  L  S  L  N  P  H  I  I  I  L  L  K  F  N  C  F  S  S  L  F  Y  L  K  F  N  C  S  N  K  L  F  F  F  F  K  C  *  K  L  R  S  S  N  T  L  F  Q  R  H  H  L  L  S  L  F  F  S  P  S  H  N  *  I  D  L  T  V  T  *  N  V  G  H  R  *  L  A  G  R  P  I  L  P  C  F  T  I  T  S  *  N  D  L  *  A  T  C  H  Y  I  C  R  P  I  Y  *  Q  L  R  S  S  T  N  F  D  E  V  A  E  R  L  C  Y  S  S  S  S  F  A  P  R  G  G  C  N  G  R  *  Y  E  G  R  A  C  R  R  R  R  Q  *  S  E  D  D  P  *  L  C  R  H  S  T  N  W  :  E  *  E  R  L  V  L  C  V  G  P  W  W  Y  K  F  P  G  A  K  G  A  A  R  W  *  R  R  A  C  S  R  H  *  V  *  A  S  L  Y  T  P  R  T  D  V  C  Y  L  R   : G  A  F  R  F  H  S  F  C  A  R  K  I  C  T  K  G  R  W  *  F  *  V  A  T  G  T  D  K  G  N  R  I  H  V  F  F  S  G  E  T  D  F  N  K  N  W  N  P  N  Q  M  D  K  R  F  C  C  L  W  N   : C  G  K  R  C  C  C  L  S  E  *  S  H  G  E  A  G  N  G  Y  A  S  V  C  P   : G  Q  *  H  C  G  N  T  C  R  S  K  I  L  G  *  *  C  H  G  C  C  H  S  W  D  W  N  Q  C  L  L  C  R  T  C  G  C  Y  S  *  A  G  K  K  D  V  *  V  S  N  N   : D  C  E  Y  R  M  G  S  F  L  K  W  P  S  F  N  *  V  *  *  R  N  G  C  R  E  H  *  P  W  *  A   : D  F  *  K  D  H  L  W  Y  V  P  W  G  N  C  E  T  G  A  G  Q  N  G  Q  G  W  G  L  I  W  *  Q  L  C  S  G  K  A  S  H  S  I  C  A  E  :  D  T  *  Y  M  C  H  A  A  G  Y  I  N  R  S  *  S  C  *  V  C  P  L  *  C  S  W   : G  K  I  R  S  K  C  K  E  N  S  R  G  H  L  R  Y  Y  C  K  T  R  G  S  S  S  W  C  R  N  C  W  Y  I  T  E  N  G  G  R  F  *  R  S  H  L  W  *  K  N  S  C  S  N  G  W  R  L  I  *  A  L  S  S  V  Q  R  I  P  P  R  S  C  H  R  A  T  R  L  G  N  F  E  K  C  S  D  R  T  F  K  R  W  I  W  Y  W  S  C  I  I  S  C  C  K  F  K  V  *  T  *  *  L  R  E  K  L  N  F  M  C  S  K  V  C  L  R  K  N  T  *  A  F  V  I  *  N  V  L  K  K  D  *  *  L  D  L  *  R  L  L  F  V  M  P  F  F  V  L  P  L  M  K  Y  E  E  V  R  I  Y  I  A  N  P  N  L  F  G  I  E  A  *  L  *  L  Y  Y  M  Q  H  *  L  I  Y  V  </second_frame>
            <third_frame>   E  K  L  *  C  S  L  L  R  F  S  F  S  T  M  K  V  T  N  S  F  I  V  S  Q  I  L  I  F  F  H  *  I  L  T  S  L  F  Y  *  N  S  T  V  F  H  H  Y  F  I  *  N  S  T  V  Q  T  N  F  F  F  F  S  S  V  K  S  *  D  L  Q  T  L  C  F  N  V  T  I  Y  C  L  S  F  F  L  R  H  T  I  E  L  I  S  L  L  P  K  M  S  V  T  V  S  S  P  A  V  R  S  F  H  V  S  R  S  P  H  K  T  I  S  R  P  R  V  I  I  S  A  V  R  S  T  D  S  L  G  V  A  P  I  L  T  K  L  Q  K  D  C  A  T  P  L  P  V  L  R  H  V  A  D  A  M  A  D  D  M  R  A  G  L  A  V  D  G  G  S  D  L  K  M  I  L  S  Y  V  D  T  L  P  T  G :   N  E  K  G  L  F  Y  A  L  D  L  G  G  T  N  F  R  V  L  R  V  Q  L  G  G  K  E  E  R  V  V  A  T  E  F  E  Q  V  S  I  P  Q  E  L  M  F  A  T  S  E  :  E  L  F  D  F  I  A  S  A  L  G  K  F  A  Q  K  E  G  G  N  F  E  L  Q  Q  G  R  T  R  E  I  G  F  T  F  S  F  P  V  K  Q  T  S  I  R  T  G  I  L  I  K  W  T  K  G  F  A  V  S  G  T  :  A  G  K  D  V  V  A  C  L  N  E  A  M  E  R  R  G  M  D  M  Q  V  S  A  L  :  V  N  D  T  V  G  T  L  A  G  A  R  Y  W  D  D  D  A  M  V  A  V  I  L  G  T  G  T  N  A  C  Y  V  E  R  V  D  A  I  P  K  L  A  K  R  M  S  K  S  P  I  T  :  I  V  N  T  E  W  G  A  F  S  N  G  L  P  L  T  E  F  D  R  E  M  D  A  E  S  I  N  P  G  E  Q  :  I  F  E  K  T  I  S  G  M  Y  L  G  E  I  V  R  R  V  L  V  K  M  A  K  V  G  G  L  F  G  S  S  Y  V  P  E  K  L  V  T  P  F  V  L  R :   T  P  D  I  C  A  M  Q  Q  D  T  S  I  D  L  E  A  V  E  S  V  L  Y  D  V  A  G  :  V  K  S  D  L  S  A  R  K  T  V  V  D  I  C  D  T  I  A  K  R  G  G  R  L  A  G  A  G  I  V  G  I  L  Q  K  M  E  E  D  S  K  G  L  I  F  G  K  R  T  V  V  A  M  D  G  G  L  Y  E  H  Y  P  Q  Y  R  G  Y  L  Q  E  A  V  T  E  L  L  G  S  E  I  S  K  N  V  V  I  E  H  S  K  D  G  S  G  I  G  A  A  L  L  A  A  A  N  S  K  Y  E  H  D  D  *  G  K  S  *  I  S  C  V  Q  R  F  A  *  G  K  I  H  E  H  L  *  F  R  M  F  *  R  R  I  D  D  W  I  Y  R  G  S  C  L  *  C  H  F  L  Y  S  H  *  *  S  T  K  K  *  G  F  I  *  P  T  P  I  Y  L  E  S  R  R  S  C  N  C  I  I  C  S  T  D  L  F  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="45527" stop="45900"/>
                    <exon start="46511" stop="46661"/>
                    <exon start="46747" stop="46929"/>
                    <exon start="47493" stop="47567"/>
                    <exon start="47666" stop="47821"/>
                    <exon start="47908" stop="48003"/>
                    <exon start="48106" stop="48239"/>
                    <exon start="48335" stop="48416"/>
                    <exon start="48821" stop="49159"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1587</number_coding_nucleotides>
                  <number_encoded_amino_acids>529</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DLQTLCFNVTIYCLSFFLRHTIELISLLPKMSVTVSSPAVRSFHVSRSPHKTISRPRVIISAVRSTDSLGVAPILTKLQKDCATPLPVLRHVADAMADDMRAGLAVDGGSDLKMILSYVDTLPTGNEKGLFYALDLGGTNFRVLRVQLGGKEERVVATEFEQVSIPQELMFATSEELFDFIASALGKFAQKEGGNFELQQGRTREIGFTFSFPVKQTSIRTGILIKWTKGFAVSGTAGKDVVACLNEAMERRGMDMQVSALVNDTVGTLAGARYWDDDAMVAVILGTGTNACYVERVDAIPKLAKRMSKSPITIVNTEWGAFSNGLPLTEFDREMDAESINPGEQIFEKTISGMYLGEIVRRVLVKMAKVGGLFGSSYVPEKLVTPFVLRTPDICAMQQDTSIDLEAVESVLYDVAGVKSDLSARKTVVDICDTIAKRGGRLAGAGIVGILQKMEEDSKGLIFGKRTVVAMDGGLYEHYPQYRGYLQEAVTELLGSEISKNVVIEHSKDGSGIGAALLAAANSKYEHDD*</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="52664" PGL_stop="55872"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="52664" e_stop="52784"/>
            <exon e_start="52931" e_stop="53029"/>
            <exon e_start="53112" e_stop="53162"/>
            <exon e_start="54466" e_stop="54639"/>
            <exon e_start="54942" e_stop="55001"/>
            <exon e_start="55530" e_stop="55872"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.799" e_score="1.000"/>
          <exon-intron don_prob="0.951" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.978" acc_prob="0.658" e_score="1.000"/>
          <exon-intron don_prob="0.951" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.713" acc_prob="0.993" e_score="1.000"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="52664" e_stop="52784" e_length="121"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.799">
            <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="52931" e_stop="53029" e_length="99"/>
          </exon>
          <intron i_serial="2" don_prob="0.951" acc_prob="0.993">
            <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="53112" e_stop="53162" e_length="51"/>
          </exon>
          <intron i_serial="3" don_prob="0.978" acc_prob="0.658">
            <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="54466" e_stop="54639" e_length="174"/>
          </exon>
          <intron i_serial="4" don_prob="0.951" acc_prob="0.997">
            <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="54942" e_stop="55001" e_length="60"/>
          </exon>
          <intron i_serial="5" don_prob="0.713" acc_prob="0.993">
            <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528"/>
          </intron>
          <exon e_serial="6" e_score="0.994">
            <gDNA_exon_boundary e_start="55530" e_stop="55872" e_length="343"/>
          </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="52664" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55560"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52771" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55745"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E308425" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52773" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55703"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295390" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52774" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55872"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E374620" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52774" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54499"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204176" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55655" stop="55799"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E308564" 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>TCTCTGGCACCTCAGTTGTGACCCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATG : ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG : GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG : TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG : GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG : GCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAGGTAGTTTGCAAGTTTAAATATGAATGTCTCTATCTATTCCCAGTTTAAATATGAATATCTTTATCTTTTGTTAACTCCAGAAACTATATTGTTGTTGGAAGTAGGAAAAGGGTTATTTCAATACGAA</gDNA_template>
            <first_frame> S  L  A  P  Q  L  *  P  *  G  L  F  A  G  F  Y  K  L  K  N  Q  R  D  F  F  N  C  F  Y  S  C  F  A  C  R  S  S  E  Q  N   : D  P  F  Y  I  A  S  E  Q  A  R  K  D  S  F  G  *  V  L  Y  T  S  *  G  I  R  E  A  Q  G  G  I  *   : G  S  *  V  G  C  E  *  R  S  Q  I  H  Q  L  C  *   : V  P  Y  S  Q  G  N  I  Q  K  I  C  R  I  I  F  L  T  L  C  *  Y  H  R  Q  R  V  G  L  F  R  V  H  P  L  V  C  G  D  F  G  S  L  L  Q  Q  C  L  *  A  G  F  G  F  Q  F  P  Q   : G  I  S  D  I  R  *  V  Y  S  C  W  G  A  P  G  N  K  *  E   : G  N  H  R  E  N  G  R  V  G  E  A  G  V  K  N  S  D  A  L  L  K  S  Q  N  K  H  L  P  F  P  S  S  P  A  L  L  F  R  L  A  V  F  T  A  L  D  I  L  Y  P  V  D  T  F  M  L  M  W  P  H  L  I  Q  D  L  F  I  H  T  F  K  G  S  L  Q  V  *  I  *  M  S  L  S  I  P  S  L  N  M  N  I  F  I  F  C  *  L  Q  K  L  Y  C  C  W  K  *  E  K  G  Y  F  N  T   </first_frame>
            <second_frame>  L  W  H  L  S  C  D  P  E  G  F  L  L  V  F  T  N  *  R  I  K  E  I  F  S  I  V  S  T  A  V  L  P  A  D  L  L  N  K  M  :  I  R  F  I  L  L  Q  N  R  Q  G  K  T  R  L  A  K  Y  Y  I  P  L  E  E  S  E  K  H  K  V  E  Y  E  :  V  H  R  L  V  V  N  R  D  P  K  F  T  N  F  V  E  :  F  R  T  H  K  V  I  Y  R  R  Y  A  G  L  F  F  S  L  C  V  D  I  T  D  N  E  L  A  Y  L  E  S  I  H  L  F  V  E  I  L  D  H  F  F  S  N  V  C  E  L  D  L  V  F  N  F  H  K  :  V  Y  L  I  L  D  E  F  I  L  A  G  E  L  Q  E  T  S  K  R  :  A  I  I  E  R  M  G  E  L  E  K  Q  E  *  R  T  P  M  L  C  S  R  V  K  T  N  T  C  L  F  L  H  H  L  H  F  S  S  G  W  L  Y  L  L  H  *  T  F  C  I  P  L  I  P  S  C  *  C  G  L  I  *  Y  K  I  C  S  F  I  H  L  K  V  V  C  K  F  K  Y  E  C  L  Y  L  F  P  V  *  I  *  I  S  L  S  F  V  N  S  R  N  Y  I  V  V  G  S  R  K  R  V  I  S  I  R  </second_frame>
            <third_frame>   S  G  T  S  V  V  T  L  R  A  F  C  W  F  L  Q  I  K  E  S  K  R  F  F  Q  L  F  L  Q  L  F  C  L  Q  I  F  *  T  K  * :   S  V  L  Y  C  F  R  T  G  K  E  R  L  V  W  L  S  I  I  Y  L  L  R  N  P  R  S  T  R  W  N  M  R :   F  I  G  W  L  *  I  E  I  P  N  S  P  T  L  L  S :   S  V  L  T  R  *  Y  T  E  D  M  Q  D  Y  F  S  H  F  V  L  I  S  Q  T  T  S  W  L  I  *  S  P  S  T  C  L  W  R  F  W  I  T  S  S  A  M  S  V  S  W  I  W  F  S  I  S  T  R :   Y  I  *  Y  *  M  S  L  F  L  L  G  S  S  R  K  Q  V  R  G :   Q  S  S  R  E  W  E  S  W  R  S  R  S  E  E  L  R  C  F  A  Q  E  S  K  Q  T  L  A  F  S  F  I  T  C  T  S  L  P  A  G  C  I  Y  C  I  R  H  S  V  S  R  *  Y  L  H  V  D  V  A  S  F  N  T  R  F  V  H  S  Y  I  *  R  *  F  A  S  L  N  M  N  V  S  I  Y  S  Q  F  K  Y  E  Y  L  Y  L  L  L  T  P  E  T  I  L  L  L  E  V  G  K  G  L  F  Q  Y  E </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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="52719" stop="52784"/>
                    <exon start="52931" stop="53029"/>
                    <exon start="53112" stop="53162"/>
                    <exon start="54466" stop="54639"/>
                    <exon start="54942" stop="55001"/>
                    <exon start="55530" stop="55571"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>489</number_coding_nucleotides>
                  <number_encoded_amino_acids>163</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RIKEIFSIVSTAVLPADLLNKMIRFILLQNRQGKTRLAKYYIPLEESEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLESIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKRAIIERMGELEKQE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="52664" e_stop="52784"/>
            <exon e_start="52931" e_stop="53029"/>
            <exon e_start="53112" e_stop="53162"/>
            <exon e_start="54466" e_stop="54639"/>
            <exon e_start="54942" e_stop="55001"/>
            <exon e_start="55530" e_stop="55745"/>
            <exon e_start="55826" e_stop="55833"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.799" e_score="1.000"/>
          <exon-intron don_prob="0.951" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.978" acc_prob="0.658" e_score="1.000"/>
          <exon-intron don_prob="0.951" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.713" acc_prob="0.993" e_score="1.000"/>
          <exon-intron don_prob="0.653" acc_prob="0.614" e_score="0.995"/>
          <exon-only e_score="0.625"/>
        </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="52664" e_stop="52784" e_length="121"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.799">
            <gDNA_intron_boundary i_start="52785" i_stop="52930" i_length="146"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="52931" e_stop="53029" e_length="99"/>
          </exon>
          <intron i_serial="2" don_prob="0.951" acc_prob="0.993">
            <gDNA_intron_boundary i_start="53030" i_stop="53111" i_length="82"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="53112" e_stop="53162" e_length="51"/>
          </exon>
          <intron i_serial="3" don_prob="0.978" acc_prob="0.658">
            <gDNA_intron_boundary i_start="53163" i_stop="54465" i_length="1303"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="54466" e_stop="54639" e_length="174"/>
          </exon>
          <intron i_serial="4" don_prob="0.951" acc_prob="0.997">
            <gDNA_intron_boundary i_start="54640" i_stop="54941" i_length="302"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="54942" e_stop="55001" e_length="60"/>
          </exon>
          <intron i_serial="5" don_prob="0.713" acc_prob="0.993">
            <gDNA_intron_boundary i_start="55002" i_stop="55529" i_length="528"/>
          </intron>
          <exon e_serial="6" e_score="0.995">
            <gDNA_exon_boundary e_start="55530" e_stop="55745" e_length="216"/>
          </exon>
          <intron i_serial="6" don_prob="0.653" acc_prob="0.614">
            <gDNA_intron_boundary i_start="55746" i_stop="55825" i_length="80"/>
          </intron>
          <exon e_serial="7" e_score="0.625">
            <gDNA_exon_boundary e_start="55826" e_stop="55833" e_length="8"/>
          </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="52664" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55560"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52686" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55745"/>
              <exon start="55826" stop="55833"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711258" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52771" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55745"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E308425" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52773" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54639"/>
              <exon start="54942" stop="55001"/>
              <exon start="55530" stop="55703"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295390" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52774" stop="52784"/>
              <exon start="52931" stop="53029"/>
              <exon start="53112" stop="53162"/>
              <exon start="54466" stop="54499"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204176" 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>TCTCTGGCACCTCAGTTGTGACCCTGAGGGCTTTTTGCTGGTTTTTACAAATTAAAGAATCAAAGAGATTTTTTCAATTGTTTCTACAGCTGTTTTGCCTGCAGATCTTCTGAACAAAATG : ATCCGTTTTATATTGCTTCAGAACAGGCAAGGAAAGACTCGTTTGGCTAAGTATTATATACCTCTTGAGGAATCCGAGAAGCACAAGGTGGAATATGAG : GTTCATAGGTTGGTTGTGAATAGAGATCCCAAATTCACCAACTTTGTTGAG : TTCCGTACTCACAAGGTAATATACAGAAGATATGCAGGATTATTTTTCTCACTTTGTGTTGATATCACAGACAACGAGTTGGCTTATTTAGAGTCCATCCACTTGTTTGTGGAGATTTTGGATCACTTCTTCAGCAATGTCTGTGAGCTGGATTTGGTTTTCAATTTCCACAAG : GTATATCTGATATTAGATGAGTTTATTCTTGCTGGGGAGCTCCAGGAAACAAGTAAGAGG : GCAATCATCGAGAGAATGGGAGAGTTGGAGAAGCAGGAGTGAAGAACTCCGATGCTTTGCTCAAGAGTCAAAACAAACACTTGCCTTTTCCTTCATCACCTGCACTTCTCTTCCGGCTGGCTGTATTTACTGCATTAGACATTCTGTATCCCGTTGATACCTTCATGTTGATGTGGCCTCATTTAATACAAGATTTGTTCATTCATACATTTAAAG : AAACTATA</gDNA_template>
            <first_frame> S  L  A  P  Q  L  *  P  *  G  L  F  A  G  F  Y  K  L  K  N  Q  R  D  F  F  N  C  F  Y  S  C  F  A  C  R  S  S  E  Q  N   : D  P  F  Y  I  A  S  E  Q  A  R  K  D  S  F  G  *  V  L  Y  T  S  *  G  I  R  E  A  Q  G  G  I  *   : G  S  *  V  G  C  E  *  R  S  Q  I  H  Q  L  C  *   : V  P  Y  S  Q  G  N  I  Q  K  I  C  R  I  I  F  L  T  L  C  *  Y  H  R  Q  R  V  G  L  F  R  V  H  P  L  V  C  G  D  F  G  S  L  L  Q  Q  C  L  *  A  G  F  G  F  Q  F  P  Q   : G  I  S  D  I  R  *  V  Y  S  C  W  G  A  P  G  N  K  *  E   : G  N  H  R  E  N  G  R  V  G  E  A  G  V  K  N  S  D  A  L  L  K  S  Q  N  K  H  L  P  F  P  S  S  P  A  L  L  F  R  L  A  V  F  T  A  L  D  I  L  Y  P  V  D  T  F  M  L  M  W  P  H  L  I  Q  D  L  F  I  H  T  F  K   : E  T  I </first_frame>
            <second_frame>  L  W  H  L  S  C  D  P  E  G  F  L  L  V  F  T  N  *  R  I  K  E  I  F  S  I  V  S  T  A  V  L  P  A  D  L  L  N  K  M  :  I  R  F  I  L  L  Q  N  R  Q  G  K  T  R  L  A  K  Y  Y  I  P  L  E  E  S  E  K  H  K  V  E  Y  E  :  V  H  R  L  V  V  N  R  D  P  K  F  T  N  F  V  E  :  F  R  T  H  K  V  I  Y  R  R  Y  A  G  L  F  F  S  L  C  V  D  I  T  D  N  E  L  A  Y  L  E  S  I  H  L  F  V  E  I  L  D  H  F  F  S  N  V  C  E  L  D  L  V  F  N  F  H  K  :  V  Y  L  I  L  D  E  F  I  L  A  G  E  L  Q  E  T  S  K  R  :  A  I  I  E  R  M  G  E  L  E  K  Q  E  *  R  T  P  M  L  C  S  R  V  K  T  N  T  C  L  F  L  H  H  L  H  F  S  S  G  W  L  Y  L  L  H  *  T  F  C  I  P  L  I  P  S  C  *  C  G  L  I  *  Y  K  I  C  S  F  I  H  L  K  :  K  L   </second_frame>
            <third_frame>   S  G  T  S  V  V  T  L  R  A  F  C  W  F  L  Q  I  K  E  S  K  R  F  F  Q  L  F  L  Q  L  F  C  L  Q  I  F  *  T  K  * :   S  V  L  Y  C  F  R  T  G  K  E  R  L  V  W  L  S  I  I  Y  L  L  R  N  P  R  S  T  R  W  N  M  R :   F  I  G  W  L  *  I  E  I  P  N  S  P  T  L  L  S :   S  V  L  T  R  *  Y  T  E  D  M  Q  D  Y  F  S  H  F  V  L  I  S  Q  T  T  S  W  L  I  *  S  P  S  T  C  L  W  R  F  W  I  T  S  S  A  M  S  V  S  W  I  W  F  S  I  S  T  R :   Y  I  *  Y  *  M  S  L  F  L  L  G  S  S  R  K  Q  V  R  G :   Q  S  S  R  E  W  E  S  W  R  S  R  S  E  E  L  R  C  F  A  Q  E  S  K  Q  T  L  A  F  S  F  I  T  C  T  S  L  P  A  G  C  I  Y  C  I  R  H  S  V  S  R  *  Y  L  H  V  D  V  A  S  F  N  T  R  F  V  H  S  Y  I  *  R :   N  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="9" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="52719" stop="52784"/>
                    <exon start="52931" stop="53029"/>
                    <exon start="53112" stop="53162"/>
                    <exon start="54466" stop="54639"/>
                    <exon start="54942" stop="55001"/>
                    <exon start="55530" stop="55571"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>489</number_coding_nucleotides>
                  <number_encoded_amino_acids>163</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RIKEIFSIVSTAVLPADLLNKMIRFILLQNRQGKTRLAKYYIPLEESEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLESIHLFVEILDHFFSNVCELDLVFNFHKVYLILDEFILAGELQETSKRAIIERMGELEKQE*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="53284" e_stop="54190"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.991"/>
        </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="0.991">
            <gDNA_exon_boundary e_start="53284" e_stop="54190" e_length="907"/>
          </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="53284" stop="53763"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251645" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53515" stop="54190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53515" stop="54114"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E551238" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53516" stop="53801"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E265123" 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>AAAATGTGATTATCTGTCTTGTTTTCGATCTATAGAACACCATACTAAGCGAATTTGCTACAATTGTGCTAAGGCAAAGGGTTCTCTTTCGCTAGCCTTTAATTTTCTAAAAGTAGTAATGTTTAACTATCTTATACTGTGAGAGGATGATGTCCTCTTGGTGGAGAACTATTTTGCTTTCCCTCTACGCTACGCCTGCACATTATCATGACATTTCACATTATTGGTGAAGTAATATCAAGATGGTTTATCGTATTTATCTACCATTGCATCATAAATACTTGTTCCGTTGGTATCAAAGGAATAACTTTGTGAAATGATTGAAGGATAGGGAGTGGTGGGGGATTCAAGATATTGTTCAAAATTTAATTTCTGTGTAGAGTAACCTATGTTATGGCTTAGTATGAAATTCTTATTGAGACATTTCTCCGTACCTACATGTTGTTTCCTAATTCAGTATCTTGGCTTTAGAAAATTTAGAGGTTGGAAGAGAGTGGGAGAGTGGAGGGAGGGAAGGATCAAGAAAGAAGAGCCATTTCCCTTTTGCTTGTGCATGATTAGAGGATTTATTTAGAATCATATACAGACTACTTTTTATGCATCATTCTAGCTTCAATATTGGTGTAATATTCCTGGATCTGATTTCTTAAAGAATCAAAAAATGTTAACCTGCAAAAGGAAACAAAAGAAGCATTGTGTTTTAACTTTGTTGGGTAATCCTTTCTCATGAGATGCTTCGTGAAGTATAACATACTATTTAAAAGTCCTCGATGACATAAAGTACAAAGCAAGATATCGGACAGAAGCTCTTTTTTCCTAAGTAAGTGATTTATCCTTGGAGCTGTAAGGGGGAAGGTAAAGCAAAGGAAGAGAGAGAAAACAAGTTTGAGGTTTGAACTTGTGTATA</gDNA_template>
            <first_frame> K  M  *  L  S  V  L  F  S  I  Y  R  T  P  Y  *  A  N  L  L  Q  L  C  *  G  K  G  F  S  F  A  S  L  *  F  S  K  S  S  N  V  *  L  S  Y  T  V  R  G  *  C  P  L  G  G  E  L  F  C  F  P  S  T  L  R  L  H  I  I  M  T  F  H  I  I  G  E  V  I  S  R  W  F  I  V  F  I  Y  H  C  I  I  N  T  C  S  V  G  I  K  G  I  T  L  *  N  D  *  R  I  G  S  G  G  G  F  K  I  L  F  K  I  *  F  L  C  R  V  T  Y  V  M  A  *  Y  E  I  L  I  E  T  F  L  R  T  Y  M  L  F  P  N  S  V  S  W  L  *  K  I  *  R  L  E  E  S  G  R  V  E  G  G  K  D  Q  E  R  R  A  I  S  L  L  L  V  H  D  *  R  I  Y  L  E  S  Y  T  D  Y  F  L  C  I  I  L  A  S  I  L  V  *  Y  S  W  I  *  F  L  K  E  S  K  N  V  N  L  Q  K  E  T  K  E  A  L  C  F  N  F  V  G  *  S  F  L  M  R  C  F  V  K  Y  N  I  L  F  K  S  P  R  *  H  K  V  Q  S  K  I  S  D  R  S  S  F  F  L  S  K  *  F  I  L  G  A  V  R  G  K  V  K  Q  R  K  R  E  K  T  S  L  R  F  E  L  V  Y  </first_frame>
            <second_frame>  K  C  D  Y  L  S  C  F  R  S  I  E  H  H  T  K  R  I  C  Y  N  C  A  K  A  K  G  S  L  S  L  A  F  N  F  L  K  V  V  M  F  N  Y  L  I  L  *  E  D  D  V  L  L  V  E  N  Y  F  A  F  P  L  R  Y  A  C  T  L  S  *  H  F  T  L  L  V  K  *  Y  Q  D  G  L  S  Y  L  S  T  I  A  S  *  I  L  V  P  L  V  S  K  E  *  L  C  E  M  I  E  G  *  G  V  V  G  D  S  R  Y  C  S  K  F  N  F  C  V  E  *  P  M  L  W  L  S  M  K  F  L  L  R  H  F  S  V  P  T  C  C  F  L  I  Q  Y  L  G  F  R  K  F  R  G  W  K  R  V  G  E  W  R  E  G  R  I  K  K  E  E  P  F  P  F  C  L  C  M  I  R  G  F  I  *  N  H  I  Q  T  T  F  Y  A  S  F  *  L  Q  Y  W  C  N  I  P  G  S  D  F  L  K  N  Q  K  M  L  T  C  K  R  K  Q  K  K  H  C  V  L  T  L  L  G  N  P  F  S  *  D  A  S  *  S  I  T  Y  Y  L  K  V  L  D  D  I  K  Y  K  A  R  Y  R  T  E  A  L  F  S  *  V  S  D  L  S  L  E  L  *  G  G  R  *  S  K  G  R  E  R  K  Q  V  *  G  L  N  L  C  I </second_frame>
            <third_frame>   N  V  I  I  C  L  V  F  D  L  *  N  T  I  L  S  E  F  A  T  I  V  L  R  Q  R  V  L  F  R  *  P  L  I  F  *  K  *  *  C  L  T  I  L  Y  C  E  R  M  M  S  S  W  W  R  T  I  L  L  S  L  Y  A  T  P  A  H  Y  H  D  I  S  H  Y  W  *  S  N  I  K  M  V  Y  R  I  Y  L  P  L  H  H  K  Y  L  F  R  W  Y  Q  R  N  N  F  V  K  *  L  K  D  R  E  W  W  G  I  Q  D  I  V  Q  N  L  I  S  V  *  S  N  L  C  Y  G  L  V  *  N  S  Y  *  D  I  S  P  Y  L  H  V  V  S  *  F  S  I  L  A  L  E  N  L  E  V  G  R  E  W  E  S  G  G  R  E  G  S  R  K  K  S  H  F  P  F  A  C  A  *  L  E  D  L  F  R  I  I  Y  R  L  L  F  M  H  H  S  S  F  N  I  G  V  I  F  L  D  L  I  S  *  R  I  K  K  C  *  P  A  K  G  N  K  R  S  I  V  F  *  L  C  W  V  I  L  S  H  E  M  L  R  E  V  *  H  T  I  *  K  S  S  M  T  *  S  T  K  Q  D  I  G  Q  K  L  F  F  P  K  *  V  I  Y  P  W  S  C  K  G  E  G  K  A  K  E  E  R  E  N  K  F  E  V  *  T  C  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/">
            <none gDNA_id="C04HBa0331L22.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="10" PGL_strand="-" PGL_start="56963" PGL_stop="56280"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="56963" e_stop="56280"/>
          </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="56963" e_stop="56280" e_length="684"/>
          </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="56963" stop="56290"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375603" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="56469" stop="56280"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E227747" 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>CAGTACAAGTTTGGTGGAGTCTCTACCTCACAAATGCGAGACTGGCAAAATGCAGGGCGACCAATGCCTATCTTTGGACCTTCTCAAGCTCAATTGGCAGCTTCTTCTTCCTCGATGGAAGCACTTTCTTCCAAGTATGTTCCACCCTTGTTGAACGAGCAGGAGCTTATGTCCATTTCTACGTCACGAACTAATTCAAGGATCAAAGGACAATATTACAGTTTCCCTTCTGGCTTGGAAGGAAGTGGACATGGACTCTACCCCAATAATGTGCCTTCATTGCAGCTTCTTTGCAATGATCGTCGTTAATACGGAGAGCCATGGCACCATGTCCATAATATCAGAGCGAAACTCCTGCAAATCATAATTGATTTATTCTTTTCTTTGCTTATGCATGAGAGTTGGTGTTCATTCTGTTACTGAATATAAGGAACACAAAAAAGGGAGGATATAGTAAATCTCATGTCCCTTATTAGATGCTTATTCTGTTTCAGTTTCAATTAATTATAGAGTAACAACTTCAGAAATGGTTGTTGGTTTTTCCCTAGATGGAAAGAAACTTTATGTGTCTGAGAAGGTTATTGACTTGTAGTATACACAAGAAGAAGAATGGCAATGAAAAAAATTGCAGCTGCTTTAAATTTCTTTCAGCAATTTTCAGGAAAATAAAGTGTTCTTTTATAC</gDNA_template>
            <first_frame> Q  Y  K  F  G  G  V  S  T  S  Q  M  R  D  W  Q  N  A  G  R  P  M  P  I  F  G  P  S  Q  A  Q  L  A  A  S  S  S  S  M  E  A  L  S  S  K  Y  V  P  P  L  L  N  E  Q  E  L  M  S  I  S  T  S  R  T  N  S  R  I  K  G  Q  Y  Y  S  F  P  S  G  L  E  G  S  G  H  G  L  Y  P  N  N  V  P  S  L  Q  L  L  C  N  D  R  R  *  Y  G  E  P  W  H  H  V  H  N  I  R  A  K  L  L  Q  I  I  I  D  L  F  F  S  L  L  M  H  E  S  W  C  S  F  C  Y  *  I  *  G  T  Q  K  R  E  D  I  V  N  L  M  S  L  I  R  C  L  F  C  F  S  F  N  *  L  *  S  N  N  F  R  N  G  C  W  F  F  P  R  W  K  E  T  L  C  V  *  E  G  Y  *  L  V  V  Y  T  R  R  R  M  A  M  K  K  I  A  A  A  L  N  F  F  Q  Q  F  S  G  K  *  S  V  L  L  Y </first_frame>
            <second_frame>  S  T  S  L  V  E  S  L  P  H  K  C  E  T  G  K  M  Q  G  D  Q  C  L  S  L  D  L  L  K  L  N  W  Q  L  L  L  P  R  W  K  H  F  L  P  S  M  F  H  P  C  *  T  S  R  S  L  C  P  F  L  R  H  E  L  I  Q  G  S  K  D  N  I  T  V  S  L  L  A  W  K  E  V  D  M  D  S  T  P  I  M  C  L  H  C  S  F  F  A  M  I  V  V  N  T  E  S  H  G  T  M  S  I  I  S  E  R  N  S  C  K  S  *  L  I  Y  S  F  L  C  L  C  M  R  V  G  V  H  S  V  T  E  Y  K  E  H  K  K  G  R  I  *  *  I  S  C  P  L  L  D  A  Y  S  V  S  V  S  I  N  Y  R  V  T  T  S  E  M  V  V  G  F  S  L  D  G  K  K  L  Y  V  S  E  K  V  I  D  L  *  Y  T  Q  E  E  E  W  Q  *  K  K  L  Q  L  L  *  I  S  F  S  N  F  Q  E  N  K  V  F  F  Y   </second_frame>
            <third_frame>   V  Q  V  W  W  S  L  Y  L  T  N  A  R  L  A  K  C  R  A  T  N  A  Y  L  W  T  F  S  S  S  I  G  S  F  F  F  L  D  G  S  T  F  F  Q  V  C  S  T  L  V  E  R  A  G  A  Y  V  H  F  Y  V  T  N  *  F  K  D  Q  R  T  I  L  Q  F  P  F  W  L  G  R  K  W  T  W  T  L  P  Q  *  C  A  F  I  A  A  S  L  Q  *  S  S  L  I  R  R  A  M  A  P  C  P  *  Y  Q  S  E  T  P  A  N  H  N  *  F  I  L  F  F  A  Y  A  *  E  L  V  F  I  L  L  L  N  I  R  N  T  K  K  G  G  Y  S  K  S  H  V  P  Y  *  M  L  I  L  F  Q  F  Q  L  I  I  E  *  Q  L  Q  K  W  L  L  V  F  P  *  M  E  R  N  F  M  C  L  R  R  L  L  T  C  S  I  H  K  K  K  N  G  N  E  K  N  C  S  C  F  K  F  L  S  A  I  F  R  K  I  K  C  S  F  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="56963" stop="56655"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>306</number_coding_nucleotides>
                  <number_encoded_amino_acids>102</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QYKFGGVSTSQMRDWQNAGRPMPIFGPSQAQLAASSSSMEALSSKYVPPLLNEQELMSISTSRTNSRIKGQYYSFPSGLEGSGHGLYPNNVPSLQLLCNDRR*</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="61410" PGL_stop="57804"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="59682" e_stop="59643"/>
            <exon e_start="59559" e_stop="59438"/>
            <exon e_start="59304" e_stop="59097"/>
            <exon e_start="59011" e_stop="58833"/>
            <exon e_start="58757" e_stop="58703"/>
            <exon e_start="58579" e_stop="58510"/>
            <exon e_start="58433" e_stop="58343"/>
            <exon e_start="58246" e_stop="57896"/>
            <exon e_start="57827" e_stop="57804"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.476" acc_prob="0.699" e_score="1.000"/>
          <exon-intron don_prob="0.943" acc_prob="0.771" e_score="1.000"/>
          <exon-intron don_prob="0.886" acc_prob="0.963" e_score="1.000"/>
          <exon-intron don_prob="0.866" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.950" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.987" e_score="0.997"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="59682" e_stop="59643" e_length="40"/>
          </exon>
          <intron i_serial="1" don_prob="0.476" acc_prob="0.699">
            <gDNA_intron_boundary i_start="59642" i_stop="59560" i_length="83"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="59559" e_stop="59438" e_length="122"/>
          </exon>
          <intron i_serial="2" don_prob="0.943" acc_prob="0.771">
            <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="59304" e_stop="59097" e_length="208"/>
          </exon>
          <intron i_serial="3" don_prob="0.886" acc_prob="0.963">
            <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="59011" e_stop="58833" e_length="179"/>
          </exon>
          <intron i_serial="4" don_prob="0.866" acc_prob="0.999">
            <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="58757" e_stop="58703" e_length="55"/>
          </exon>
          <intron i_serial="5" don_prob="0.990" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="58579" e_stop="58510" e_length="70"/>
          </exon>
          <intron i_serial="6" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="58433" e_stop="58343" e_length="91"/>
          </exon>
          <intron i_serial="7" don_prob="0.950" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58342" i_stop="58247" i_length="96"/>
          </intron>
          <exon e_serial="8" e_score="0.997">
            <gDNA_exon_boundary e_start="58246" e_stop="57896" e_length="351"/>
          </exon>
          <intron i_serial="8" don_prob="1.000" acc_prob="0.987">
            <gDNA_intron_boundary i_start="57895" i_stop="57828" i_length="68"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="57827" e_stop="57804" e_length="24"/>
          </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="59682" stop="59643"/>
              <exon start="59559" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58536"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375604" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59682" stop="59643"/>
              <exon start="59559" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58573"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255230" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59682" stop="59643"/>
              <exon start="59559" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58573"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255555" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59544" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59522" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58355"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248048" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59253" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="58107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709386" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59172" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="57896"/>
              <exon start="57827" stop="57804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703524" 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>GATTGTACTGGCCAAGTTTCTGGTTTTAATCTCTTATAAG : TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG : ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG : TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA : GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG : GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA : GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAG : GATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCTCATGTTTATATAAGTCGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCCTCGCATCCTTCTCAGTCCTCACCTCCTGATGGAGTGAAGCAAGAGCCTCCTATAATTCAGAACAGCCCAACTGTAAAGGTGAATGATATGCATGGAATTGTTTCTACTGGGAATGTTGCCTCTACTGTTGAGAAGAATCCAACTGAAGTTAGAAATGCAATCCTTTTGCACCAAAGACTCCTCCAAGATCAGCAACAGGCTTCTACTACATCTGGGTTCAATTCTTTAGCAAAGCAG : AATGCAGATTTCCTTTCATTGTCA</gDNA_template>
            <first_frame> D  C  T  G  Q  V  S  G  F  N  L  L  *   : V  I  K  K  R  I  R  K  L  I  S  P  P  L  P  I  S  K  K  A  N  R  M  S  D  G  A  E  T  L  R  K  Y  G  N  K  S  K  L  N  L  :  T  H  C  G  S  S  R  C  I  K  E  E  L  D  C  P  I  T  K  D  E  E  E  V  A  E  T  L  Y  A  L  A  G  M  I  P  D  V  D  T  L  S  E  S  K  I  N  S  Q  L  P  E  V  K  S  L  D  L  P  E  P  E  A  S  V  I  A  S  G   : V  V  T  T  E  Q  D  I  R  T  N  S  S  Q  F  S  A  E  A  L  K  Q  F  P  D  I  A  V  S  A  G  E  A  A  K  S  K  S  F  H  D  A  S  P  C  D  T  F  I  N  T  E  Q  L  E  I  S  S  Q  Q  :  V  V  A  Y  Q  A  N  K  Q  N  T  H  K  E  N  R  N  N   : G  S  L  L  W  P  G  L  S  A  A  G  S  S  C  S  D  I  L  D  S  S  P  Q :   F  P  I  G  K  F  P  V  W  I  G  S  A  G  T  D  H  Q  A  Q  N  A  K  S  C  L  P  T  M  K  :  D  S  Q  V  P  L  E  L  R  K  S  F  K  R  C  A  A  H  V  Y  I  S  R  L  T  K  G  L  Q  T  S  M  R  G  D  T  V  S  S  H  P  S  Q  S  S  P  P  D  G  V  K  Q  E  P  P  I  I  Q  N  S  P  T  V  K  V  N  D  M  H  G  I  V  S  T  G  N  V  A  S  T  V  E  K  N  P  T  E  V  R  N  A  I  L  L  H  Q  R  L  L  Q  D  Q  Q  Q  A  S  T  T  S  G  F  N  S  L  A  K  Q  :  N  A  D  F  L  S  L  S </first_frame>
            <second_frame>  I  V  L  A  K  F  L  V  L  I  S  Y  K  :  L  S  R  R  E  F  A  S  S  S  L  H  L  C  R  F  P  K  R  R  I  A  C  Q  M  E  L  K  H  *  G  N  M  A  T  S  L  S  L  I  * :   L  I  V  V  Q  V  G  V  *  R  R  S  L  I  V  Q  S  P  K  M  K  R  K  W  L  K  P  C  M  L  W  L  V  *  S  Q  M  L  T  P  *  A  K  A  K  *  I  V  N  F  L  K  *  N  L  W  T  Y  Q  N  L  R  L  L  *  S  Q  V  E  :  L  *  Q  Q  N  R  T  *  G  Q  T  A  P  N  S  V  L  K  L  *  S  S  F  Q  T  *  L  F  L  L  E  K  L  P  N  Q  N  H  F  M  M  L  P  R  V  I  H  S  S  T  Q  S  S  *  K  F  H  R  N  K :   L  L  L  I  K  P  T  N  K  T  H  T  R  R  I  G  I  M  :  V  H  C  C  G  Q  A  C  L  Q  Q  G  H  L  V  P  T  Y  L  I  L  H  H   : S  F  Q  L  A  N  F  L  S  G  S  G  A  L  A  L  I  I  K  L  K  M  Q  N  L  V  Y  Q  P  *  R :   I  L  K  F  H  L  S  *  G  S  H  L  R  G  V  L  L  M  F  I  *  V  G  *  L  R  A  Y  R  L  R  *  E  V  T  Q  S  P  R  I  L  L  S  P  H  L  L  M  E  *  S  K  S  L  L  *  F  R  T  A  Q  L  *  R  *  M  I  C  M  E  L  F  L  L  G  M  L  P  L  L  L  R  R  I  Q  L  K  L  E  M  Q  S  F  C  T  K  D  S  S  K  I  S  N  R  L  L  L  H  L  G  S  I  L  *  Q  S  R :   M  Q  I  S  F  H  C   </second_frame>
            <third_frame>   L  Y  W  P  S  F  W  F  *  S  L  I  S :   Y  Q  E  E  N  S  Q  A  H  L  S  T  F  A  D  F  Q  K  G  E  S  H  V  R  W  S  *  N  T  K  E  I  W  Q  Q  V  *  A  *  F   : D  S  L  W  F  K  S  V  Y  K  G  G  A  *  L  S  N  H  Q  R  *  R  G  S  G  *  N  L  V  C  F  G  W  Y  D  P  R  C  *  H  L  E  R  K  Q  N  K  *  S  T  S  *  S  E  I  F  G  L  T  R  T  *  G  F  C  N  R  K  W  S :   C  N  N  R  T  G  H  K  D  K  Q  L  P  I  Q  C  *  S  F  E  A  V  S  R  H  S  C  F  C  W  R  S  C  Q  I  K  I  I  S  *  C  F  P  V  *  Y  I  H  Q  H  R  A  A  R  N  F  I  A  T   : S  C  C  L  S  S  Q  Q  T  K  H  T  Q  G  E  *  E  *  W :   F  I  V  V  A  R  L  V  C  S  R  V  I  L  F  R  H  T  *  F  F  T  T  :  V  S  N  W  Q  I  S  C  L  D  R  E  R  W  H  *  S  S  S  S  K  C  K  I  L  S  T  N  H  E   : G  F  S  S  S  T  *  V  E  E  V  I  *  E  V  C  C  S  C  L  Y  K  S  A  D  *  G  L  T  D  F  D  E  R  *  H  S  L  L  A  S  F  S  V  L  T  S  *  W  S  E  A  R  A  S  Y  N  S  E  Q  P  N  C  K  G  E  *  Y  A  W  N  C  F  Y  W  E  C  C  L  Y  C  *  E  E  S  N  *  S  *  K  C  N  P  F  A  P  K  T  P  P  R  S  A  T  G  F  Y  Y  I  W  V  Q  F  F  S  K  A   : E  C  R  F  P  F  I  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="59643" stop="59438"/>
                    <exon start="59304" stop="59097"/>
                    <exon start="59011" stop="58833"/>
                    <exon start="58757" stop="58703"/>
                    <exon start="58579" stop="58510"/>
                    <exon start="58433" stop="58343"/>
                    <exon start="58246" stop="57896"/>
                    <exon start="57827" stop="57804"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1101</number_coding_nucleotides>
                  <number_encoded_amino_acids>367</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VIKKRIRKLISPPLPISKKANRMSDGAETLRKYGNKSKLNLTHCGSSRCIKEELDCPITKDEEEVAETLYALAGMIPDVDTLSESKINSQLPEVKSLDLPEPEASVIASGVVTTEQDIRTNSSQFSAEALKQFPDIAVSAGEAAKSKSFHDASPCDTFINTEQLEISSQQVVAYQANKQNTHKENRNNGSLLWPGLSAAGSSCSDILDSSPQFPIGKFPVWIGSAGTDHQAQNAKSCLPTMKDSQVPLELRKSFKRCAAHVYISRLTKGLQTSMRGDTVSSHPSQSSPPDGVKQEPPIIQNSPTVKVNDMHGIVSTGNVASTVEKNPTEVRNAILLHQRLLQDQQQASTTSGFNSLAKQNADFLSLS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="59669" e_stop="59438"/>
            <exon e_start="59304" e_stop="59097"/>
            <exon e_start="59011" e_stop="58833"/>
            <exon e_start="58757" e_stop="58703"/>
            <exon e_start="58579" e_stop="58510"/>
            <exon e_start="58433" e_stop="58343"/>
            <exon e_start="58246" e_stop="57896"/>
            <exon e_start="57827" e_stop="57804"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.943" acc_prob="0.771" e_score="0.983"/>
          <exon-intron don_prob="0.886" acc_prob="0.963" e_score="1.000"/>
          <exon-intron don_prob="0.866" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.950" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.987" e_score="0.997"/>
          <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="0.983">
            <gDNA_exon_boundary e_start="59669" e_stop="59438" e_length="232"/>
          </exon>
          <intron i_serial="1" don_prob="0.943" acc_prob="0.771">
            <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="59304" e_stop="59097" e_length="208"/>
          </exon>
          <intron i_serial="2" don_prob="0.886" acc_prob="0.963">
            <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="59011" e_stop="58833" e_length="179"/>
          </exon>
          <intron i_serial="3" don_prob="0.866" acc_prob="0.999">
            <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="58757" e_stop="58703" e_length="55"/>
          </exon>
          <intron i_serial="4" don_prob="0.990" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="58579" e_stop="58510" e_length="70"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="58433" e_stop="58343" e_length="91"/>
          </exon>
          <intron i_serial="6" don_prob="0.950" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58342" i_stop="58247" i_length="96"/>
          </intron>
          <exon e_serial="7" e_score="0.997">
            <gDNA_exon_boundary e_start="58246" e_stop="57896" e_length="351"/>
          </exon>
          <intron i_serial="7" don_prob="1.000" acc_prob="0.987">
            <gDNA_intron_boundary i_start="57895" i_stop="57828" i_length="68"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="57827" e_stop="57804" e_length="24"/>
          </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="59669" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58853"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255376" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59544" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59522" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58355"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248048" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59253" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="58107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709386" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59172" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="57896"/>
              <exon start="57827" stop="57804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703524" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAGTTTCTGGTTTTAATCTCTTATAAGGTGAAATGGTTCTTGTTTGAGTTAAACTTTGGACTTCCAATTGATCATAAATTGTTTGCTTTTGGATCCTTTGCCCTTTGTAGTTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG : ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG : TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA : GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG : GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA : GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAG : GATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCTCATGTTTATATAAGTCGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCCTCGCATCCTTCTCAGTCCTCACCTCCTGATGGAGTGAAGCAAGAGCCTCCTATAATTCAGAACAGCCCAACTGTAAAGGTGAATGATATGCATGGAATTGTTTCTACTGGGAATGTTGCCTCTACTGTTGAGAAGAATCCAACTGAAGTTAGAAATGCAATCCTTTTGCACCAAAGACTCCTCCAAGATCAGCAACAGGCTTCTACTACATCTGGGTTCAATTCTTTAGCAAAGCAG : AATGCAGATTTCCTTTCATTGTCA</gDNA_template>
            <first_frame> K  F  L  V  L  I  S  Y  K  V  K  W  F  L  F  E  L  N  F  G  L  P  I  D  H  K  L  F  A  F  G  S  F  A  L  C  S  Y  Q  E  E  N  S  Q  A  H  L  S  T  F  A  D  F  Q  K  G  E  S  H  V  R  W  S  *  N  T  K  E  I  W  Q  Q  V  *  A  *  F   : D  S  L  W  F  K  S  V  Y  K  G  G  A  *  L  S  N  H  Q  R  *  R  G  S  G  *  N  L  V  C  F  G  W  Y  D  P  R  C  *  H  L  E  R  K  Q  N  K  *  S  T  S  *  S  E  I  F  G  L  T  R  T  *  G  F  C  N  R  K  W  S :   C  N  N  R  T  G  H  K  D  K  Q  L  P  I  Q  C  *  S  F  E  A  V  S  R  H  S  C  F  C  W  R  S  C  Q  I  K  I  I  S  *  C  F  P  V  *  Y  I  H  Q  H  R  A  A  R  N  F  I  A  T   : S  C  C  L  S  S  Q  Q  T  K  H  T  Q  G  E  *  E  *  W :   F  I  V  V  A  R  L  V  C  S  R  V  I  L  F  R  H  T  *  F  F  T  T  :  V  S  N  W  Q  I  S  C  L  D  R  E  R  W  H  *  S  S  S  S  K  C  K  I  L  S  T  N  H  E   : G  F  S  S  S  T  *  V  E  E  V  I  *  E  V  C  C  S  C  L  Y  K  S  A  D  *  G  L  T  D  F  D  E  R  *  H  S  L  L  A  S  F  S  V  L  T  S  *  W  S  E  A  R  A  S  Y  N  S  E  Q  P  N  C  K  G  E  *  Y  A  W  N  C  F  Y  W  E  C  C  L  Y  C  *  E  E  S  N  *  S  *  K  C  N  P  F  A  P  K  T  P  P  R  S  A  T  G  F  Y  Y  I  W  V  Q  F  F  S  K  A   : E  C  R  F  P  F  I  V  </first_frame>
            <second_frame>  S  F  W  F  *  S  L  I  R  *  N  G  S  C  L  S  *  T  L  D  F  Q  L  I  I  N  C  L  L  L  D  P  L  P  F  V  V  I  K  K  R  I  R  K  L  I  S  P  P  L  P  I  S  K  K  A  N  R  M  S  D  G  A  E  T  L  R  K  Y  G  N  K  S  K  L  N  L  :  T  H  C  G  S  S  R  C  I  K  E  E  L  D  C  P  I  T  K  D  E  E  E  V  A  E  T  L  Y  A  L  A  G  M  I  P  D  V  D  T  L  S  E  S  K  I  N  S  Q  L  P  E  V  K  S  L  D  L  P  E  P  E  A  S  V  I  A  S  G   : V  V  T  T  E  Q  D  I  R  T  N  S  S  Q  F  S  A  E  A  L  K  Q  F  P  D  I  A  V  S  A  G  E  A  A  K  S  K  S  F  H  D  A  S  P  C  D  T  F  I  N  T  E  Q  L  E  I  S  S  Q  Q  :  V  V  A  Y  Q  A  N  K  Q  N  T  H  K  E  N  R  N  N   : G  S  L  L  W  P  G  L  S  A  A  G  S  S  C  S  D  I  L  D  S  S  P  Q :   F  P  I  G  K  F  P  V  W  I  G  S  A  G  T  D  H  Q  A  Q  N  A  K  S  C  L  P  T  M  K  :  D  S  Q  V  P  L  E  L  R  K  S  F  K  R  C  A  A  H  V  Y  I  S  R  L  T  K  G  L  Q  T  S  M  R  G  D  T  V  S  S  H  P  S  Q  S  S  P  P  D  G  V  K  Q  E  P  P  I  I  Q  N  S  P  T  V  K  V  N  D  M  H  G  I  V  S  T  G  N  V  A  S  T  V  E  K  N  P  T  E  V  R  N  A  I  L  L  H  Q  R  L  L  Q  D  Q  Q  Q  A  S  T  T  S  G  F  N  S  L  A  K  Q  :  N  A  D  F  L  S  L  S </second_frame>
            <third_frame>   V  S  G  F  N  L  L  *  G  E  M  V  L  V  *  V  K  L  W  T  S  N  *  S  *  I  V  C  F  W  I  L  C  P  L  *  L  S  R  R  E  F  A  S  S  S  L  H  L  C  R  F  P  K  R  R  I  A  C  Q  M  E  L  K  H  *  G  N  M  A  T  S  L  S  L  I  * :   L  I  V  V  Q  V  G  V  *  R  R  S  L  I  V  Q  S  P  K  M  K  R  K  W  L  K  P  C  M  L  W  L  V  *  S  Q  M  L  T  P  *  A  K  A  K  *  I  V  N  F  L  K  *  N  L  W  T  Y  Q  N  L  R  L  L  *  S  Q  V  E  :  L  *  Q  Q  N  R  T  *  G  Q  T  A  P  N  S  V  L  K  L  *  S  S  F  Q  T  *  L  F  L  L  E  K  L  P  N  Q  N  H  F  M  M  L  P  R  V  I  H  S  S  T  Q  S  S  *  K  F  H  R  N  K :   L  L  L  I  K  P  T  N  K  T  H  T  R  R  I  G  I  M  :  V  H  C  C  G  Q  A  C  L  Q  Q  G  H  L  V  P  T  Y  L  I  L  H  H   : S  F  Q  L  A  N  F  L  S  G  S  G  A  L  A  L  I  I  K  L  K  M  Q  N  L  V  Y  Q  P  *  R :   I  L  K  F  H  L  S  *  G  S  H  L  R  G  V  L  L  M  F  I  *  V  G  *  L  R  A  Y  R  L  R  *  E  V  T  Q  S  P  R  I  L  L  S  P  H  L  L  M  E  *  S  K  S  L  L  *  F  R  T  A  Q  L  *  R  *  M  I  C  M  E  L  F  L  L  G  M  L  P  L  L  L  R  R  I  Q  L  K  L  E  M  Q  S  F  C  T  K  D  S  S  K  I  S  N  R  L  L  L  H  L  G  S  I  L  *  Q  S  R :   M  Q  I  S  F  H  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="59617" stop="59438"/>
                    <exon start="59304" stop="59097"/>
                    <exon start="59011" stop="58833"/>
                    <exon start="58757" stop="58703"/>
                    <exon start="58579" stop="58510"/>
                    <exon start="58433" stop="58343"/>
                    <exon start="58246" stop="57896"/>
                    <exon start="57827" stop="57804"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1158</number_coding_nucleotides>
                  <number_encoded_amino_acids>386</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TLDFQLIINCLLLDPLPFVVIKKRIRKLISPPLPISKKANRMSDGAETLRKYGNKSKLNLTHCGSSRCIKEELDCPITKDEEEVAETLYALAGMIPDVDTLSESKINSQLPEVKSLDLPEPEASVIASGVVTTEQDIRTNSSQFSAEALKQFPDIAVSAGEAAKSKSFHDASPCDTFINTEQLEISSQQVVAYQANKQNTHKENRNNGSLLWPGLSAAGSSCSDILDSSPQFPIGKFPVWIGSAGTDHQAQNAKSCLPTMKDSQVPLELRKSFKRCAAHVYISRLTKGLQTSMRGDTVSSHPSQSSPPDGVKQEPPIIQNSPTVKVNDMHGIVSTGNVASTVEKNPTEVRNAILLHQRLLQDQQQASTTSGFNSLAKQNADFLSLS</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="61410" e_stop="61286"/>
            <exon e_start="60257" e_stop="60076"/>
            <exon e_start="59995" e_stop="59938"/>
            <exon e_start="59559" e_stop="59438"/>
            <exon e_start="59304" e_stop="59097"/>
            <exon e_start="59011" e_stop="58833"/>
            <exon e_start="58757" e_stop="58703"/>
            <exon e_start="58579" e_stop="58510"/>
            <exon e_start="58433" e_stop="58343"/>
            <exon e_start="58246" e_stop="57896"/>
            <exon e_start="57827" e_stop="57804"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.830" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.969" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.993" acc_prob="0.699" e_score="1.000"/>
          <exon-intron don_prob="0.943" acc_prob="0.771" e_score="1.000"/>
          <exon-intron don_prob="0.886" acc_prob="0.963" e_score="1.000"/>
          <exon-intron don_prob="0.866" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.990" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.950" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.987" e_score="0.997"/>
          <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="1.000">
            <gDNA_exon_boundary e_start="61410" e_stop="61286" e_length="125"/>
          </exon>
          <intron i_serial="1" don_prob="0.830" acc_prob="0.994">
            <gDNA_intron_boundary i_start="61285" i_stop="60258" i_length="1028"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="60257" e_stop="60076" e_length="182"/>
          </exon>
          <intron i_serial="2" don_prob="0.969" acc_prob="0.999">
            <gDNA_intron_boundary i_start="60075" i_stop="59996" i_length="80"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="59995" e_stop="59938" e_length="58"/>
          </exon>
          <intron i_serial="3" don_prob="0.993" acc_prob="0.699">
            <gDNA_intron_boundary i_start="59937" i_stop="59560" i_length="378"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="59559" e_stop="59438" e_length="122"/>
          </exon>
          <intron i_serial="4" don_prob="0.943" acc_prob="0.771">
            <gDNA_intron_boundary i_start="59437" i_stop="59305" i_length="133"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="59304" e_stop="59097" e_length="208"/>
          </exon>
          <intron i_serial="5" don_prob="0.886" acc_prob="0.963">
            <gDNA_intron_boundary i_start="59096" i_stop="59012" i_length="85"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="59011" e_stop="58833" e_length="179"/>
          </exon>
          <intron i_serial="6" don_prob="0.866" acc_prob="0.999">
            <gDNA_intron_boundary i_start="58832" i_stop="58758" i_length="75"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="58757" e_stop="58703" e_length="55"/>
          </exon>
          <intron i_serial="7" don_prob="0.990" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58702" i_stop="58580" i_length="123"/>
          </intron>
          <exon e_serial="8" e_score="1.000">
            <gDNA_exon_boundary e_start="58579" e_stop="58510" e_length="70"/>
          </exon>
          <intron i_serial="8" don_prob="0.999" acc_prob="0.000">
            <gDNA_intron_boundary i_start="58509" i_stop="58434" i_length="76"/>
          </intron>
          <exon e_serial="9" e_score="1.000">
            <gDNA_exon_boundary e_start="58433" e_stop="58343" e_length="91"/>
          </exon>
          <intron i_serial="9" don_prob="0.950" acc_prob="0.998">
            <gDNA_intron_boundary i_start="58342" i_stop="58247" i_length="96"/>
          </intron>
          <exon e_serial="10" e_score="0.997">
            <gDNA_exon_boundary e_start="58246" e_stop="57896" e_length="351"/>
          </exon>
          <intron i_serial="10" don_prob="1.000" acc_prob="0.987">
            <gDNA_intron_boundary i_start="57895" i_stop="57828" i_length="68"/>
          </intron>
          <exon e_serial="11" e_score="1.000">
            <gDNA_exon_boundary e_start="57827" e_stop="57804" e_length="24"/>
          </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="61410" stop="61286"/>
              <exon start="60257" stop="60076"/>
              <exon start="59995" stop="59938"/>
              <exon start="59559" stop="59438"/>
              <exon start="59304" stop="59144"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E554340" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59544" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58518"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E378710" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59522" stop="59438"/>
              <exon start="59304" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58355"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E248048" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59253" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="58107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709386" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="59172" stop="59097"/>
              <exon start="59011" stop="58833"/>
              <exon start="58757" stop="58703"/>
              <exon start="58579" stop="58510"/>
              <exon start="58433" stop="58343"/>
              <exon start="58246" stop="57896"/>
              <exon start="57827" stop="57804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703524" 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="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAACAGAGTAACTGATCGTTTTCGTGTGAAATCTTGAGAGAATCGGGTAATCAAAAACCGAAAGCTTCGGTTTTTCCGTTTGTTAAGCAGAAATATTCTCAGATAGCTAAATCGTTACTATTTGG : ATTGTAAGGGAGGAAATGAAATAATTGCGAAGAAATCGAAGAAAGGGGGAGAAAGATTGAGTGGTGCTGGTGAAGTTTAGTCCAGTATGAACAACATTGAAATGGGTTGTTTAAAGTCTGATGATAACGATGAGATTCATTCCAATGTTTCTGTTCGGAAGCGATTTAAGTTTCCCAAAAAG : TTTTTTGATGAGTGTAATGGAGTAGATCATGCTTCTGTTCCTCGGAAAGTTCGTTCAG : TTATCAAGAAGAGAATTCGCAAGCTCATCTCTCCACCTTTGCCGATTTCCAAAAAGGCGAATCGCATGTCAGATGGAGCTGAAACACTAAGGAAATATGGCAACAAGTCTAAGCTTAATTTG : ACTCATTGTGGTTCAAGTCGGTGTATAAAGGAGGAGCTTGATTGTCCAATCACCAAAGATGAAGAGGAAGTGGCTGAAACCTTGTATGCTTTGGCTGGTATGATCCCAGATGTTGACACCTTGAGCGAAAGCAAAATAAATAGTCAACTTCCTGAAGTGAAATCTTTGGACTTACCAGAACCTGAGGCTTCTGTAATCGCAAGTGGAG : TTGTAACAACAGAACAGGACATAAGGACAAACAGCTCCCAATTCAGTGCTGAAGCTTTGAAGCAGTTTCCAGACATAGCTGTTTCTGCTGGAGAAGCTGCCAAATCAAAATCATTTCATGATGCTTCCCCGTGTGATACATTCATCAACACAGAGCAGCTAGAAATTTCATCGCAACAA : GTTGTTGCTTATCAAGCCAACAAACAAAACACACACAAGGAGAATAGGAATAATG : GTTCATTGTTGTGGCCAGGCTTGTCTGCAGCAGGGTCATCTTGTTCCGACATACTTGATTCTTCACCACA : GTTTCCAATTGGCAAATTTCCTGTCTGGATCGGGAGCGCTGGCACTGATCATCAAGCTCAAAATGCAAAATCTTGTCTACCAACCATGAAG : GATTCTCAAGTTCCACTTGAGTTGAGGAAGTCATTTAAGAGGTGTGCTGCTCATGTTTATATAAGTCGGCTGACTAAGGGCTTACAGACTTCGATGAGAGGTGACACAGTCTCCTCGCATCCTTCTCAGTCCTCACCTCCTGATGGAGTGAAGCAAGAGCCTCCTATAATTCAGAACAGCCCAACTGTAAAGGTGAATGATATGCATGGAATTGTTTCTACTGGGAATGTTGCCTCTACTGTTGAGAAGAATCCAACTGAAGTTAGAAATGCAATCCTTTTGCACCAAAGACTCCTCCAAGATCAGCAACAGGCTTCTACTACATCTGGGTTCAATTCTTTAGCAAAGCAG : AATGCAGATTTCCTTTCATTGTCA</gDNA_template>
            <first_frame> K  Q  S  N  *  S  F  S  C  E  I  L  R  E  S  G  N  Q  K  P  K  A  S  V  F  P  F  V  K  Q  K  Y  S  Q  I  A  K  S  L  L  F  G :   L  *  G  R  K  *  N  N  C  E  E  I  E  E  R  G  R  K  I  E  W  C  W  *  S  L  V  Q  Y  E  Q  H  *  N  G  L  F  K  V  *  *  *  R  *  D  S  F  Q  C  F  C  S  E  A  I  *  V  S  Q  K   : V  F  *  *  V  *  W  S  R  S  C  F  C  S  S  E  S  S  F  S :   Y  Q  E  E  N  S  Q  A  H  L  S  T  F  A  D  F  Q  K  G  E  S  H  V  R  W  S  *  N  T  K  E  I  W  Q  Q  V  *  A  *  F   : D  S  L  W  F  K  S  V  Y  K  G  G  A  *  L  S  N  H  Q  R  *  R  G  S  G  *  N  L  V  C  F  G  W  Y  D  P  R  C  *  H  L  E  R  K  Q  N  K  *  S  T  S  *  S  E  I  F  G  L  T  R  T  *  G  F  C  N  R  K  W  S :   C  N  N  R  T  G  H  K  D  K  Q  L  P  I  Q  C  *  S  F  E  A  V  S  R  H  S  C  F  C  W  R  S  C  Q  I  K  I  I  S  *  C  F  P  V  *  Y  I  H  Q  H  R  A  A  R  N  F  I  A  T   : S  C  C  L  S  S  Q  Q  T  K  H  T  Q  G  E  *  E  *  W :   F  I  V  V  A  R  L  V  C  S  R  V  I  L  F  R  H  T  *  F  F  T  T  :  V  S  N  W  Q  I  S  C  L  D  R  E  R  W  H  *  S  S  S  S  K  C  K  I  L  S  T  N  H  E   : G  F  S  S  S  T  *  V  E  E  V  I  *  E  V  C  C  S  C  L  Y  K  S  A  D  *  G  L  T  D  F  D  E  R  *  H  S  L  L  A  S  F  S  V  L  T  S  *  W  S  E  A  R  A  S  Y  N  S  E  Q  P  N  C  K  G  E  *  Y  A  W  N  C  F  Y  W  E  C  C  L  Y  C  *  E  E  S  N  *  S  *  K  C  N  P  F  A  P  K  T  P  P  R  S  A  T  G  F  Y  Y  I  W  V  Q  F  F  S  K  A   : E  C  R  F  P  F  I  V  </first_frame>
            <second_frame>  N  R  V  T  D  R  F  R  V  K  S  *  E  N  R  V  I  K  N  R  K  L  R  F  F  R  L  L  S  R  N  I  L  R  *  L  N  R  Y  Y  L   : D  C  K  G  G  N  E  I  I  A  K  K  S  K  K  G  G  E  R  L  S  G  A  G  E  V  *  S  S  M  N  N  I  E  M  G  C  L  K  S  D  D  N  D  E  I  H  S  N  V  S  V  R  K  R  F  K  F  P  K  K  :  F  F  D  E  C  N  G  V  D  H  A  S  V  P  R  K  V  R  S   : V  I  K  K  R  I  R  K  L  I  S  P  P  L  P  I  S  K  K  A  N  R  M  S  D  G  A  E  T  L  R  K  Y  G  N  K  S  K  L  N  L  :  T  H  C  G  S  S  R  C  I  K  E  E  L  D  C  P  I  T  K  D  E  E  E  V  A  E  T  L  Y  A  L  A  G  M  I  P  D  V  D  T  L  S  E  S  K  I  N  S  Q  L  P  E  V  K  S  L  D  L  P  E  P  E  A  S  V  I  A  S  G   : V  V  T  T  E  Q  D  I  R  T  N  S  S  Q  F  S  A  E  A  L  K  Q  F  P  D  I  A  V  S  A  G  E  A  A  K  S  K  S  F  H  D  A  S  P  C  D  T  F  I  N  T  E  Q  L  E  I  S  S  Q  Q  :  V  V  A  Y  Q  A  N  K  Q  N  T  H  K  E  N  R  N  N   : G  S  L  L  W  P  G  L  S  A  A  G  S  S  C  S  D  I  L  D  S  S  P  Q :   F  P  I  G  K  F  P  V  W  I  G  S  A  G  T  D  H  Q  A  Q  N  A  K  S  C  L  P  T  M  K  :  D  S  Q  V  P  L  E  L  R  K  S  F  K  R  C  A  A  H  V  Y  I  S  R  L  T  K  G  L  Q  T  S  M  R  G  D  T  V  S  S  H  P  S  Q  S  S  P  P  D  G  V  K  Q  E  P  P  I  I  Q  N  S  P  T  V  K  V  N  D  M  H  G  I  V  S  T  G  N  V  A  S  T  V  E  K  N  P  T  E  V  R  N  A  I  L  L  H  Q  R  L  L  Q  D  Q  Q  Q  A  S  T  T  S  G  F  N  S  L  A  K  Q  :  N  A  D  F  L  S  L  S </second_frame>
            <third_frame>   T  E  *  L  I  V  F  V  *  N  L  E  R  I  G  *  S  K  T  E  S  F  G  F  S  V  C  *  A  E  I  F  S  D  S  *  I  V  T  I  W  :  I  V  R  E  E  M  K  *  L  R  R  N  R  R  K  G  E  K  D  *  V  V  L  V  K  F  S  P  V  *  T  T  L  K  W  V  V  *  S  L  M  I  T  M  R  F  I  P  M  F  L  F  G  S  D  L  S  F  P  K  S :   F  L  M  S  V  M  E  *  I  M  L  L  F  L  G  K  F  V  Q  :  L  S  R  R  E  F  A  S  S  S  L  H  L  C  R  F  P  K  R  R  I  A  C  Q  M  E  L  K  H  *  G  N  M  A  T  S  L  S  L  I  * :   L  I  V  V  Q  V  G  V  *  R  R  S  L  I  V  Q  S  P  K  M  K  R  K  W  L  K  P  C  M  L  W  L  V  *  S  Q  M  L  T  P  *  A  K  A  K  *  I  V  N  F  L  K  *  N  L  W  T  Y  Q  N  L  R  L  L  *  S  Q  V  E  :  L  *  Q  Q  N  R  T  *  G  Q  T  A  P  N  S  V  L  K  L  *  S  S  F  Q  T  *  L  F  L  L  E  K  L  P  N  Q  N  H  F  M  M  L  P  R  V  I  H  S  S  T  Q  S  S  *  K  F  H  R  N  K :   L  L  L  I  K  P  T  N  K  T  H  T  R  R  I  G  I  M  :  V  H  C  C  G  Q  A  C  L  Q  Q  G  H  L  V  P  T  Y  L  I  L  H  H   : S  F  Q  L  A  N  F  L  S  G  S  G  A  L  A  L  I  I  K  L  K  M  Q  N  L  V  Y  Q  P  *  R :   I  L  K  F  H  L  S  *  G  S  H  L  R  G  V  L  L  M  F  I  *  V  G  *  L  R  A  Y  R  L  R  *  E  V  T  Q  S  P  R  I  L  L  S  P  H  L  L  M  E  *  S  K  S  L  L  *  F  R  T  A  Q  L  *  R  *  M  I  C  M  E  L  F  L  L  G  M  L  P  L  L  L  R  R  I  Q  L  K  L  E  M  Q  S  F  C  T  K  D  S  S  K  I  S  N  R  L  L  L  H  L  G  S  I  L  *  Q  S  R :   M  Q  I  S  F  H  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="11" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="60177" stop="60076"/>
                    <exon start="59995" stop="59938"/>
                    <exon start="59559" stop="59438"/>
                    <exon start="59304" stop="59097"/>
                    <exon start="59011" stop="58833"/>
                    <exon start="58757" stop="58703"/>
                    <exon start="58579" stop="58510"/>
                    <exon start="58433" stop="58343"/>
                    <exon start="58246" stop="57896"/>
                    <exon start="57827" stop="57804"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1260</number_coding_nucleotides>
                  <number_encoded_amino_acids>420</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SSMNNIEMGCLKSDDNDEIHSNVSVRKRFKFPKKFFDECNGVDHASVPRKVRSVIKKRIRKLISPPLPISKKANRMSDGAETLRKYGNKSKLNLTHCGSSRCIKEELDCPITKDEEEVAETLYALAGMIPDVDTLSESKINSQLPEVKSLDLPEPEASVIASGVVTTEQDIRTNSSQFSAEALKQFPDIAVSAGEAAKSKSFHDASPCDTFINTEQLEISSQQVVAYQANKQNTHKENRNNGSLLWPGLSAAGSSCSDILDSSPQFPIGKFPVWIGSAGTDHQAQNAKSCLPTMKDSQVPLELRKSFKRCAAHVYISRLTKGLQTSMRGDTVSSHPSQSSPPDGVKQEPPIIQNSPTVKVNDMHGIVSTGNVASTVEKNPTEVRNAILLHQRLLQDQQQASTTSGFNSLAKQNADFLSLS</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="62659" PGL_stop="67055"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62659" e_stop="62717"/>
            <exon e_start="64493" e_stop="64873"/>
            <exon e_start="65475" e_stop="65544"/>
            <exon e_start="66068" e_stop="66234"/>
            <exon e_start="66342" e_stop="66415"/>
            <exon e_start="66779" e_stop="67055"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.954" e_score="0.966"/>
          <exon-intron don_prob="0.939" acc_prob="0.991" e_score="0.971"/>
          <exon-intron don_prob="0.462" acc_prob="0.956" e_score="1.000"/>
          <exon-intron don_prob="0.585" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.969" acc_prob="0.997" 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="0.966">
            <gDNA_exon_boundary e_start="62659" e_stop="62717" e_length="59"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.954">
            <gDNA_intron_boundary i_start="62718" i_stop="64492" i_length="1775"/>
          </intron>
          <exon e_serial="2" e_score="0.971">
            <gDNA_exon_boundary e_start="64493" e_stop="64873" e_length="381"/>
          </exon>
          <intron i_serial="2" don_prob="0.939" acc_prob="0.991">
            <gDNA_intron_boundary i_start="64874" i_stop="65474" i_length="601"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="65475" e_stop="65544" e_length="70"/>
          </exon>
          <intron i_serial="3" don_prob="0.462" acc_prob="0.956">
            <gDNA_intron_boundary i_start="65545" i_stop="66067" i_length="523"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="66068" e_stop="66234" e_length="167"/>
          </exon>
          <intron i_serial="4" don_prob="0.585" acc_prob="0.999">
            <gDNA_intron_boundary i_start="66235" i_stop="66341" i_length="107"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="66342" e_stop="66415" e_length="74"/>
          </exon>
          <intron i_serial="5" don_prob="0.969" acc_prob="0.997">
            <gDNA_intron_boundary i_start="66416" i_stop="66778" i_length="363"/>
          </intron>
          <exon e_serial="6" e_score="0.996">
            <gDNA_exon_boundary e_start="66779" e_stop="67055" e_length="277"/>
          </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="62659" stop="62717"/>
              <exon start="64493" stop="64873"/>
              <exon start="65475" stop="65544"/>
              <exon start="66068" stop="66139"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709337" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="64665" stop="64873"/>
              <exon start="65475" stop="65544"/>
              <exon start="66068" stop="66234"/>
              <exon start="66342" stop="66415"/>
              <exon start="66779" stop="66861"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E275862" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65475" stop="65544"/>
              <exon start="66068" stop="66234"/>
              <exon start="66342" stop="66415"/>
              <exon start="66779" stop="67055"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541021" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65475" stop="65544"/>
              <exon start="66068" stop="66234"/>
              <exon start="66342" stop="66415"/>
              <exon start="66779" stop="67055"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541023" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65475" stop="65544"/>
              <exon start="66068" stop="66234"/>
              <exon start="66342" stop="66415"/>
              <exon start="66779" stop="67030"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293529" 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>GTCTACTCTGTCGCCGGTTGCCGCCGGTTGTCGCTGCTCGCACGTCTTCTCTTTTTCAG : CTGATATAAGCCCAAAATTGTAGCTTATGTTTGGACTAAACTACAAATTGGTTAAGGTGCTCCCATCGACAATACACTATTGGAGAACGAGTGCAGAGGTCTGATATTTCTCGTTCAAGTGTCGACTCAACGCCGAGAGAAGTCGCCTTTTTTGGTTGAGAAAAACCTCGAAACTGCCCTTTGGCTCATCTTAATGTAACTATTATTGTGACAGAGAAGATAAGAACATTGTTTTTGTGAAATCAGATGTCGACAGCAACATACCCACCACCCCCTCCGTTTTATAGGCTGTACAAGGACTATCTTCAAGACCCCAAGTCTGCTCCGGAACCTCCCCCTCCAATTGAGGGCACCTATGTCCTCTTTGGTAGCAACTACACT : ACTGATGATGTACTCCCAAATTTGGAAGAGCAGGGTGTGCGTCAGTTATACCCAAAAGGGCCTAATGTTG : ATTTCAAGAAAGAACTAAGAGCACTTAACAGAGAATTGCAGCTACATATATTGGAGCTTGCTGATGTTCTTGTAGAGCGCCCTTCGCAATATGCCAGGAGAGTGGAAGAGATATCTCTGATATTCAAGAACTTGCACCACCTACTCAATTCTCTGCGTCCTCACCAG : GCTCGAGCCACACTTATCCACATTCTAGAACTTCAGATACAACGACGTAAACAAGCAATAGAGGATATCAAGCG : GAGAAGGGAAGAAGCTCAGAAGCTTCTAAAGGAGGCACTTGGTACCCTTGAGGGACAGTAGAATGCTCTTTAGACTTTACACACACAGCTGGCAGAATTAGTGTCTAGAATGCTTTGAAATTACAGTATAGAAATCATTCAGTCCTAATGTGAAATTTTCTTTATTCACTTGCCTGAATTTTATACAGTGACAATGCTTTTATGTGGCAAGTGTCACAATCCAGTGCCAAAAATTCGACGTTTCAGTCATCGAGGCAATACAGAGTTTCGATTAAGA</gDNA_template>
            <first_frame> V  Y  S  V  A  G  C  R  R  L  S  L  L  A  R  L  L  F  F  S :   *  Y  K  P  K  I  V  A  Y  V  W  T  K  L  Q  I  G  *  G  A  P  I  D  N  T  L  L  E  N  E  C  R  G  L  I  F  L  V  Q  V  S  T  Q  R  R  E  K  S  P  F  L  V  E  K  N  L  E  T  A  L  W  L  I  L  M  *  L  L  L  *  Q  R  R  *  E  H  C  F  C  E  I  R  C  R  Q  Q  H  T  H  H  P  L  R  F  I  G  C  T  R  T  I  F  K  T  P  S  L  L  R  N  L  P  L  Q  L  R  A  P  M  S  S  L  V  A  T  T  L :   L  M  M  Y  S  Q  I  W  K  S  R  V  C  V  S  Y  T  Q  K  G  L  M  L  :  I  S  R  K  N  *  E  H  L  T  E  N  C  S  Y  I  Y  W  S  L  L  M  F  L  *  S  A  L  R  N  M  P  G  E  W  K  R  Y  L  *  Y  S  R  T  C  T  T  Y  S  I  L  C  V  L  T  R :   L  E  P  H  L  S  T  F  *  N  F  R  Y  N  D  V  N  K  Q  *  R  I  S  S   : G  E  G  K  K  L  R  S  F  *  R  R  H  L  V  P  L  R  D  S  R  M  L  F  R  L  Y  T  H  S  W  Q  N  *  C  L  E  C  F  E  I  T  V  *  K  S  F  S  P  N  V  K  F  S  L  F  T  C  L  N  F  I  Q  *  Q  C  F  Y  V  A  S  V  T  I  Q  C  Q  K  F  D  V  S  V  I  E  A  I  Q  S  F  D  *   </first_frame>
            <second_frame>  S  T  L  S  P  V  A  A  G  C  R  C  S  H  V  F  S  F  S   : A  D  I  S  P  K  L  *  L  M  F  G  L  N  Y  K  L  V  K  V  L  P  S  T  I  H  Y  W  R  T  S  A  E  V  *  Y  F  S  F  K  C  R  L  N  A  E  R  S  R  L  F  W  L  R  K  T  S  K  L  P  F  G  S  S  *  C  N  Y  Y  C  D  R  E  D  K  N  I  V  F  V  K  S  D  V  D  S  N  I  P  T  T  P  S  V  L  *  A  V  Q  G  L  S  S  R  P  Q  V  C  S  G  T  S  P  S  N  *  G  H  L  C  P  L  W  *  Q  L  H   : Y  *  *  C  T  P  K  F  G  R  A  G  C  A  S  V  I  P  K  R  A  *  C  * :   F  Q  E  R  T  K  S  T  *  Q  R  I  A  A  T  Y  I  G  A  C  *  C  S  C  R  A  P  F  A  I  C  Q  E  S  G  R  D  I  S  D  I  Q  E  L  A  P  P  T  Q  F  S  A  S  S  P   : G  S  S  H  T  Y  P  H  S  R  T  S  D  T  T  T  *  T  S  N  R  G  Y  Q  A  :  E  K  G  R  S  S  E  A  S  K  G  G  T  W  Y  P  *  G  T  V  E  C  S  L  D  F  T  H  T  A  G  R  I  S  V  *  N  A  L  K  L  Q  Y  R  N  H  S  V  L  M  *  N  F  L  Y  S  L  A  *  I  L  Y  S  D  N  A  F  M  W  Q  V  S  Q  S  S  A  K  N  S  T  F  Q  S  S  R  Q  Y  R  V  S  I  K  </second_frame>
            <third_frame>   L  L  C  R  R  L  P  P  V  V  A  A  R  T  S  S  L  F  Q  :  L  I  *  A  Q  N  C  S  L  C  L  D  *  T  T  N  W  L  R  C  S  H  R  Q  Y  T  I  G  E  R  V  Q  R  S  D  I  S  R  S  S  V  D  S  T  P  R  E  V  A  F  F  G  *  E  K  P  R  N  C  P  L  A  H  L  N  V  T  I  I  V  T  E  K  I  R  T  L  F  L  *  N  Q  M  S  T  A  T  Y  P  P  P  P  P  F  Y  R  L  Y  K  D  Y  L  Q  D  P  K  S  A  P  E  P  P  P  P  I  E  G  T  Y  V  L  F  G  S  N  Y  T  :  T  D  D  V  L  P  N  L  E  E  Q  G  V  R  Q  L  Y  P  K  G  P  N  V   : D  F  K  K  E  L  R  A  L  N  R  E  L  Q  L  H  I  L  E  L  A  D  V  L  V  E  R  P  S  Q  Y  A  R  R  V  E  E  I  S  L  I  F  K  N  L  H  H  L  L  N  S  L  R  P  H  Q  :  A  R  A  T  L  I  H  I  L  E  L  Q  I  Q  R  R  K  Q  A  I  E  D  I  K  R :   R  R  E  E  A  Q  K  L  L  K  E  A  L  G  T  L  E  G  Q  *  N  A  L  *  T  L  H  T  Q  L  A  E  L  V  S  R  M  L  *  N  Y  S  I  E  I  I  Q  S  *  C  E  I  F  F  I  H  L  P  E  F  Y  T  V  T  M  L  L  C  G  K  C  H  N  P  V  P  K  I  R  R  F  S  H  R  G  N  T  E  F  R  L  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="12" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="64733" stop="64873"/>
                    <exon start="65475" stop="65544"/>
                    <exon start="66068" stop="66234"/>
                    <exon start="66342" stop="66415"/>
                    <exon start="66779" stop="66839"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>510</number_coding_nucleotides>
                  <number_encoded_amino_acids>170</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NQMSTATYPPPPPFYRLYKDYLQDPKSAPEPPPPIEGTYVLFGSNYTTDDVLPNLEEQGVRQLYPKGPNVDFKKELRALNRELQLHILELADVLVERPSQYARRVEEISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAIEDIKRRREEAQKLLKEALGTLEGQ*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="13" PGL_strand="-" PGL_start="72154" PGL_stop="67410"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="72133" e_stop="72067"/>
            <exon e_start="71414" e_stop="70939"/>
            <exon e_start="70216" e_stop="69785"/>
            <exon e_start="68950" e_stop="68392"/>
            <exon e_start="68006" e_stop="67492"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.522" e_score="0.985"/>
          <exon-intron don_prob="1.000" acc_prob="0.980" e_score="1.000"/>
          <exon-intron don_prob="0.950" acc_prob="0.661" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.995" e_score="0.995"/>
          <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="0.985">
            <gDNA_exon_boundary e_start="72133" e_stop="72067" e_length="67"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.522">
            <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="71414" e_stop="70939" e_length="476"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.980">
            <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="70216" e_stop="69785" e_length="432"/>
          </exon>
          <intron i_serial="3" don_prob="0.950" acc_prob="0.661">
            <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834"/>
          </intron>
          <exon e_serial="4" e_score="0.995">
            <gDNA_exon_boundary e_start="68950" e_stop="68392" e_length="559"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.995">
            <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385"/>
          </intron>
          <exon e_serial="5" e_score="0.990">
            <gDNA_exon_boundary e_start="68006" e_stop="67492" e_length="515"/>
          </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="72133" stop="72067"/>
              <exon start="71414" stop="70942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E306616" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="72121" stop="72067"/>
              <exon start="71414" stop="70939"/>
              <exon start="70216" stop="69918"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703207" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="71268" stop="70939"/>
              <exon start="70216" stop="69785"/>
              <exon start="68950" stop="68881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710513" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70971" stop="70939"/>
              <exon start="70216" stop="69785"/>
              <exon start="68950" stop="68528"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E706587" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70188" stop="69785"/>
              <exon start="68950" stop="68824"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E249886" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70034" stop="69785"/>
              <exon start="68950" stop="68769"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245464" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68950" stop="68392"/>
              <exon start="68006" stop="67773"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710038" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68930" stop="68556"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282307" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68891" stop="68392"/>
              <exon start="68006" stop="67959"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246669" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67658"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E377720" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67847"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E232098" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67874"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241362" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68505" stop="68392"/>
              <exon start="68006" stop="67492"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E356850" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68410" stop="68392"/>
              <exon start="68006" stop="67590"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E208262" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="67982" stop="67568"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E307559" 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="13" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAG : ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG : GTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG : GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG : TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAATGTTGAATTTTTTATGAATTGGCTACGAGATTGTACACTTCACTCCTATTTTTTTCCAGTTAATCTGGTTTTCGTCTAAGAGTGTTCGTCGAATGCCAATAGATGTGTGTTGTTAGCTGATCTACT</gDNA_template>
            <first_frame> F  L  G  N  L  R  S  H  *  S  S  P  *  P  P  P  P  P  P  I  L  *   : D  L  W  I  R  F  L  I  V  *  D  F  W  K  Y  W  K  M  P  S  P  V  D  V  S  Q  N  G  N  A  R  H  A  E  A  A  P  S  L  F  E  I  E  E  D  L  A  R  L  L  E  R  P  R  Q  V  N  I  E  R  K  R  S  F  D  E  R  S  F  S  E  M  S  M  T  H  S  P  P  R  Q  V  Y  K  N  S  E  N  S  S  R  V  F  D  N  M  V  G  V  Y  S  P  G  R  W  S  G  I  H  T  P  R  S  T  F  G  Y  E  P  H  P  I  I  G  E  A  W  E  A  L  R  R  S  I  V  N  F  R  D  Q  P  V  G  T  I  A  A  I  D  N  S  A  E  E  L  N  Y  D  Q  :  V  F  V  R  D  F  V  P  S  A  L  A  F  L  M  N  G  E  P  D  I  V  K  N  F  L  L  K  T  L  R  L  Q  S  R  E  K  K  I  D  Q  F  K  L  G  D  G  V  M  P  A  S  F  K  V  S  H  D  P  V  R  N  Y  E  T  I  T  A  D  F  G  E  S  A  I  G  R  V  A  P  V  D  S  G  F  W  W  I  I  L  L  R  A  Y  T  K  S  T  G  D  T  S  L  A  E  M  P  E  C  Q  R  G  I  R  L  I  L  E  L  C  L  S  E  G  F  D  T  F  P  T  L  L  C  A  D  G  C  S  M  I  D  R  R  M  :  G  V  Y  G  Y  P  I  E  I  Q  A  L  F  F  M  A  L  R  C  A  L  F  L  L  K  H  D  E  E  N  Q  E  C  C  D  A  I  I  K  R  L  H  A  L  S  F  H  M  R  S  Y  Y  W  L  D  I  K  Q  L  N  D  I  Y  R  Y  K  T  E  E  Y  S  H  T  A  V  N  K  F  N  V  M  P  D  S  L  P  E  W  V  F  D  F  M  P  T  R  G  G  Y  F  I  G  N  V  S  P  A  H  M  D  F  R  W  F  C  L  G  N  C  I  S  I  L  S  S  L  A  T  P  E  Q  A  S  A  I  M  D  L  V  E  S  R  W  Q  E  L  V  G  E  M  P  L  K  I  C  Y  P  A  M  E  G  H  E  W  R  I  V  T  G  C  D  P  K  N  T  S  W  S  Y  H  N  G  G  T  W  P   : V  L  L  W  L  L  T  A  A  A  I  K  T  G  R  P  Q  I  A  R  R  A  I  E  L  A  E  S  R  L  L  K  D  S  W  P  E  Y  Y  D  G  K  L  G  R  F  I  G  K  Q  A  R  K  F  Q  T  W  S  I  A  G  Y  L  V  A  R  M  M  L  E  D  P  S  H  L  G  M  I  S  L  E  E  D  K  Q  M  K  P  T  M  K  R  S  A  S  W  T  C  *  Y  P  C  T  Q  I  F  F  R  M  P  C  F  F  F  L  S  F  C  N  S  *  T  L  S  F  S  L  S  Q  K  C  *  I  F  Y  E  L  A  T  R  L  Y  T  S  L  L  F  F  S  S  *  S  G  F  R  L  R  V  F  V  E  C  Q  *  M  C  V  V  S  *  S  T </first_frame>
            <second_frame>  S  S  E  T  L  D  L  T  E  V  R  R  S  R  R  R  R  R  R  Y  F  E  :  I  F  G  F  D  F  L  L  S  R  T  F  G  S  I  G  R  C  L  A  L  W  M  C  L  K  M  G  M  Q  D  T  R  K  L  L  H  P  C  L  K  S  R  K  I  W  L  D  C  W  K  G  Q  D  K  L  I  L  K  G  R  G  R  S  M  K  D  L  S  A  K  C  Q  *  L  I  H  R  H  V  R  Y  T  K  I  R  R  T  L  L  V  F  L  I  I  W  L  E  C  I  H  Q  E  G  G  P  A  Y  T  H  P  D  Q  P  S  D  M  S  R  I  L  *  S  A  K  H  G  K  L  *  G  V  L  L  L  T  S  E  I  N  L  W  E  L  L  L  L  *  I  I  L  L  R  N  L  T  M  I  R :   F  L  S  E  I  L  S  P  A  L  W  H  S  *  *  M  V  N  L  I  *  *  R  I  F  F  *  K  P  C  A  S  N  L  G  R  R  R  *  T  S  S  S  W  G  M  E  L  C  L  Q  V  L  K  C  L  M  I  L  L  G  T  M  R  L  *  L  L  I  S  V  K  V  L  L  V  E  L  L  L  L  I  Q  G  S  G  G  L  Y  Y  F  V  H  T  Q  S  L  Q  G  T  L  L  W  L  R  C  Q  N  A  K  G  V  *  G  *  F  L  N  Y  V  S  L  K  V  L  I  H  S  Q  P  C  C  A  L  M  D  A  L  *  L  I  A  E  W :   V  S  M  A  I  L  L  K  Y  K  H  F  S  L  W  P  *  D  V  P  C  F  S  L  N  T  T  K  K  T  K  S  V  V  M  Q  *  L  N  D  F  M  L  *  A  F  T  *  E  V  T  I  G  S  T  *  N  N  *  M  I  Y  T  A  T  K  Q  K  S  T  L  T  L  Q  *  T  S  L  M  *  C  Q  I  P  F  R  S  G  F  L  I  S  C  Q  L  V  V  V  T  S  S  E  M  L  V  L  L  T  W  T  S  V  G  F  V  W  V  T  V  F  Q  S  C  H  L  W  L  H  L  S  K  L  P  P  *  W  I  S  L  N  Q  D  G  K  S  *  L  E  K  C  R  *  K  S  V  I  L  L  W  K  A  M  N  G  E  L  *  Q  D  A  T  L  K  T  L  V  G  V  T  T  M  V  A  L  G  Q  :  F  F  C  G  S  L  L  Q  Q  L  S  R  L  V  D  P  K  *  H  D  G  P  L  N  *  L  N  R  V  Y  *  K  I  A  G  Q  S  I  T  T  E  S  L  V  D  L  L  E  S  R  R  V  S  S  R  H  G  P  L  L  V  T  W  *  L  E  *  C  W  K  I  H  L  I  W  V  *  Y  H  L  K  K  I  N  R  *  S  L  P  *  K  D  L  L  L  G  L  V  N  I  L  V  H  K  F  S  F  E  C  H  A  F  F  F  S  L  F  A  I  R  K  H  S  L  L  V  C  R  K  N  V  E  F  F  M  N  W  L  R  D  C  T  L  H  S  Y  F  F  P  V  N  L  V  F  V  *  E  C  S  S  N  A  N  R  C  V  L  L  A  D  L   </second_frame>
            <third_frame>   P  R  K  P  *  I  S  L  K  F  A  V  A  A  A  A  A  A  D  T  L  R :   S  L  D  S  I  S  Y  C  L  G  L  L  E  V  L  E  D  A  *  P  C  G  C  V  S  K  W  E  C  K  T  R  G  S  C  S  I  L  V  *  N  R  G  R  F  G  *  I  A  G  K  A  K  T  S  *  Y  *  K  E  E  V  V  R  *  K  I  F  Q  R  N  V  N  D  S  F  T  A  T  S  G  I  Q  K  F  G  E  L  F  S  C  F  *  *  Y  G  W  S  V  F  T  R  K  V  V  R  H  T  H  T  Q  I  N  L  R  I  *  A  A  S  Y  N  R  R  S  M  G  S  F  E  A  F  Y  C  *  L  P  R  S  T  C  G  N  Y  C  C  Y  R  *  F  C  *  G  T  *  L  *  S   : G  F  C  Q  R  F  C  P  Q  R  F  G  I  L  D  E  W  *  T  *  Y  S  K  E  F  S  F  E  N  L  A  P  P  I  S  G  E  E  D  R  P  V  Q  V  G  G  W  S  Y  A  C  K  F  *  S  V  S  *  S  C  *  E  L  *  D  Y  N  C  *  F  R  *  K  C  Y  W  *  S  C  S  C  *  F  R  V  L  V  D  Y  T  T  S  C  I  H  K  V  Y  R  G  H  F  F  G  *  D  A  R  M  P  K  G  Y  K  A  D  S  *  I  M  S  L  *  R  F  *  Y  I  P  N  P  A  V  R  *  W  M  L  Y  D  *  S  Q  N   : G  C  L  W  L  S  Y  *  N  T  S  T  F  L  Y  G  L  K  M  C  L  V  S  P  *  T  R  R  R  K  P  R  V  L  *  C  N  N  *  T  T  S  C  F  K  L  S  H  E  K  L  L  L  A  R  H  K  T  T  E  *  Y  I  P  L  Q  N  R  R  V  L  S  H  C  S  K  Q  V  *  C  D  A  R  F  P  S  G  V  G  F  *  F  H  A  N  S  W  W  L  L  H  R  K  C  *  S  C  S  H  G  L  P  L  V  L  F  G  *  L  Y  F  N  L  V  I  F  G  Y  T  *  A  S  F  R  H  N  G  S  R  *  I  K  M  A  R  A  S  W  R  N  A  A  E  N  L  L  S  C  Y  G  R  P  *  M  E  N  C  N  R  M  R  P  *  K  H  *  L  E  L  P  Q  W  W  H  L  A  S :   S  S  V  A  P  Y  C  S  S  Y  Q  D  W  S  T  P  N  S  T  T  G  H  *  T  S  *  I  A  F  T  K  R  *  L  A  R  V  L  R  R  K  A  W  S  I  Y  W  K  A  G  A  *  V  P  D  M  V  H  C  W  L  L  G  S  *  N  D  A  G  R  S  I  S  F  G  Y  D  I  T  *  R  R  *  T  D  E  A  Y  H  E  K  I  C  F  L  D  L  L  I  S  L  Y  T  N  F  L  S  N  A  M  L  F  F  S  L  F  L  Q  F  V  N  T  L  F  *  F  V  A  K  M  L  N  F  L  *  I  G  Y  E  I  V  H  F  T  P  I  F  F  Q  L  I  W  F  S  S  K  S  V  R  R  M  P  I  D  V  C  C  *  L  I  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="71385" stop="70939"/>
                    <exon start="70216" stop="69785"/>
                    <exon start="68950" stop="68392"/>
                    <exon start="68006" stop="67711"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1731</number_coding_nucleotides>
                  <number_encoded_amino_acids>577</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DFWKYWKMPSPVDVSQNGNARHAEAAPSLFEIEEDLARLLERPRQVNIERKRSFDERSFSEMSMTHSPPRQVYKNSENSSRVFDNMVGVYSPGRWSGIHTPRSTFGYEPHPIIGEAWEALRRSIVNFRDQPVGTIAAIDNSAEELNYDQVFVRDFVPSALAFLMNGEPDIVKNFLLKTLRLQSREKKIDQFKLGDGVMPASFKVSHDPVRNYETITADFGESAIGRVAPVDSGFWWIILLRAYTKSTGDTSLAEMPECQRGIRLILELCLSEGFDTFPTLLCADGCSMIDRRMGVYGYPIEIQALFFMALRCALFLLKHDEENQECCDAIIKRLHALSFHMRSYYWLDIKQLNDIYRYKTEEYSHTAVNKFNVMPDSLPEWVFDFMPTRGGYFIGNVSPAHMDFRWFCLGNCISILSSLATPEQASAIMDLVESRWQELVGEMPLKICYPAMEGHEWRIVTGCDPKNTSWSYHNGGTWPVLLWLLTAAAIKTGRPQIARRAIELAESRLLKDSWPEYYDGKLGRFIGKQARKFQTWSIAGYLVARMMLEDPSHLGMISLEEDKQMKPTMKRSASWTC*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="67736" stop="67539"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>195</number_coding_nucleotides>
                  <number_encoded_amino_acids>65</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KDLLLGLVNILVHKFSFECHAFFFSLFAIRKHSLLVCRKNVEFFMNWLRDCTLHSYFFPVNLVFV*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="72154" e_stop="72067"/>
            <exon e_start="71414" e_stop="70939"/>
            <exon e_start="70216" e_stop="69785"/>
            <exon e_start="68950" e_stop="68392"/>
            <exon e_start="68006" e_stop="67617"/>
            <exon e_start="67419" e_stop="67410"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.522" e_score="0.985"/>
          <exon-intron don_prob="1.000" acc_prob="0.980" e_score="1.000"/>
          <exon-intron don_prob="0.950" acc_prob="0.661" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.995" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.814" e_score="0.985"/>
          <exon-only e_score="0.700"/>
        </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="72154" e_stop="72067" e_length="88"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.522">
            <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="71414" e_stop="70939" e_length="476"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.980">
            <gDNA_intron_boundary i_start="70938" i_stop="70217" i_length="722"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="70216" e_stop="69785" e_length="432"/>
          </exon>
          <intron i_serial="3" don_prob="0.950" acc_prob="0.661">
            <gDNA_intron_boundary i_start="69784" i_stop="68951" i_length="834"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="68950" e_stop="68392" e_length="559"/>
          </exon>
          <intron i_serial="4" don_prob="0.996" acc_prob="0.995">
            <gDNA_intron_boundary i_start="68391" i_stop="68007" i_length="385"/>
          </intron>
          <exon e_serial="5" e_score="0.985">
            <gDNA_exon_boundary e_start="68006" e_stop="67617" e_length="390"/>
          </exon>
          <intron i_serial="5" don_prob="0.000" acc_prob="0.814">
            <gDNA_intron_boundary i_start="67616" i_stop="67420" i_length="197"/>
          </intron>
          <exon e_serial="6" e_score="0.700">
            <gDNA_exon_boundary e_start="67419" e_stop="67410" e_length="10"/>
          </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="72154" stop="72067"/>
              <exon start="71414" stop="70939"/>
              <exon start="70216" stop="69785"/>
              <exon start="68950" stop="68392"/>
              <exon start="68006" stop="67617"/>
              <exon start="67419" stop="67410"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745830" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="72133" stop="72067"/>
              <exon start="71414" stop="70942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E306616" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="72121" stop="72067"/>
              <exon start="71414" stop="70939"/>
              <exon start="70216" stop="69918"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703207" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="71268" stop="70939"/>
              <exon start="70216" stop="69785"/>
              <exon start="68950" stop="68881"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710513" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70971" stop="70939"/>
              <exon start="70216" stop="69785"/>
              <exon start="68950" stop="68528"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E706587" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70188" stop="69785"/>
              <exon start="68950" stop="68824"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E249886" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="70034" stop="69785"/>
              <exon start="68950" stop="68769"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E245464" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68950" stop="68392"/>
              <exon start="68006" stop="67773"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E710038" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68930" stop="68556"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282307" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68891" stop="68392"/>
              <exon start="68006" stop="67959"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246669" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67658"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E377720" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67847"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E232098" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="68772" stop="68392"/>
              <exon start="68006" stop="67874"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E241362" 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="13" AGS_serial="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TGATAGTTCATGGTTGGTGTCTTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAG : ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG : GTTTTTGTCAGAGATTTTGTCCCCAGCGCTTTGGCATTCTTGATGAATGGTGAACCTGATATAGTAAAGAATTTTCTTTTGAAAACCTTGCGCCTCCAATCTCGGGAGAAGAAGATAGACCAGTTCAAGTTGGGGGATGGAGTTATGCCTGCAAGTTTTAAAGTGTCTCATGATCCTGTTAGGAACTATGAGACTATAACTGCTGATTTCGGTGAAAGTGCTATTGGTAGAGTTGCTCCTGTTGATTCAGGGTTCTGGTGGATTATACTACTTCGTGCATACACAAAGTCTACAGGGGACACTTCTTTGGCTGAGATGCCAGAATGCCAAAGGGGTATAAGGCTGATTCTTGAATTATGTCTCTCTGAAGGTTTTGATACATTCCCAACCCTGCTGTGCGCTGATGGATGCTCTATGATTGATCGCAGAATG : GGTGTCTATGGCTATCCTATTGAAATACAAGCACTTTTCTTTATGGCCTTAAGATGTGCCTTGTTTCTCCTTAAACACGACGAAGAAAACCAAGAGTGTTGTGATGCAATAATTAAACGACTTCATGCTTTAAGCTTTCACATGAGAAGTTACTATTGGCTCGACATAAAACAACTGAATGATATATACCGCTACAAAACAGAAGAGTACTCTCACACTGCAGTAAACAAGTTTAATGTGATGCCAGATTCCCTTCCGGAGTGGGTTTTTGATTTCATGCCAACTCGTGGTGGTTACTTCATCGGAAATGTTAGTCCTGCTCACATGGACTTCCGTTGGTTTTGTTTGGGTAACTGTATTTCAATCTTGTCATCTTTGGCTACACCTGAGCAAGCTTCCGCCATAATGGATCTCGTTGAATCAAGATGGCAAGAGCTAGTTGGAGAAATGCCGCTGAAAATCTGTTATCCTGCTATGGAAGGCCATGAATGGAGAATTGTAACAGGATGCGACCCTAAAAACACTAGTTGGAGTTACCACAATGGTGGCACTTGGCCAG : TTCTTCTGTGGCTCCTTACTGCAGCAGCTATCAAGACTGGTCGACCCCAAATAGCACGACGGGCCATTGAACTAGCTGAATCGCGTTTACTAAAAGATAGCTGGCCAGAGTATTACGACGGAAAGCTTGGTCGATTTATTGGAAAGCAGGCGCGTAAGTTCCAGACATGGTCCATTGCTGGTTACTTGGTAGCTAGAATGATGCTGGAAGATCCATCTCATTTGGGTATGATATCACTTGAAGAAGATAAACAGATGAAGCCTACCATGAAAAGATCTGCTTCTTGGACTTGTTAATATCCTTGTACACAAATTTTCTTTCGAATGCCATGCTTTTTTTTTCTCTCTTTTTGCAATTCGTAAACACTCTCTTTTAGTTTGTCGCAAAAAT : CAACAAAACA</gDNA_template>
            <first_frame> *  *  F  M  V  G  V  F  L  G  N  L  R  S  H  *  S  S  P  *  P  P  P  P  P  P  I  L  *   : D  L  W  I  R  F  L  I  V  *  D  F  W  K  Y  W  K  M  P  S  P  V  D  V  S  Q  N  G  N  A  R  H  A  E  A  A  P  S  L  F  E  I  E  E  D  L  A  R  L  L  E  R  P  R  Q  V  N  I  E  R  K  R  S  F  D  E  R  S  F  S  E  M  S  M  T  H  S  P  P  R  Q  V  Y  K  N  S  E  N  S  S  R  V  F  D  N  M  V  G  V  Y  S  P  G  R  W  S  G  I  H  T  P  R  S  T  F  G  Y  E  P  H  P  I  I  G  E  A  W  E  A  L  R  R  S  I  V  N  F  R  D  Q  P  V  G  T  I  A  A  I  D  N  S  A  E  E  L  N  Y  D  Q  :  V  F  V  R  D  F  V  P  S  A  L  A  F  L  M  N  G  E  P  D  I  V  K  N  F  L  L  K  T  L  R  L  Q  S  R  E  K  K  I  D  Q  F  K  L  G  D  G  V  M  P  A  S  F  K  V  S  H  D  P  V  R  N  Y  E  T  I  T  A  D  F  G  E  S  A  I  G  R  V  A  P  V  D  S  G  F  W  W  I  I  L  L  R  A  Y  T  K  S  T  G  D  T  S  L  A  E  M  P  E  C  Q  R  G  I  R  L  I  L  E  L  C  L  S  E  G  F  D  T  F  P  T  L  L  C  A  D  G  C  S  M  I  D  R  R  M  :  G  V  Y  G  Y  P  I  E  I  Q  A  L  F  F  M  A  L  R  C  A  L  F  L  L  K  H  D  E  E  N  Q  E  C  C  D  A  I  I  K  R  L  H  A  L  S  F  H  M  R  S  Y  Y  W  L  D  I  K  Q  L  N  D  I  Y  R  Y  K  T  E  E  Y  S  H  T  A  V  N  K  F  N  V  M  P  D  S  L  P  E  W  V  F  D  F  M  P  T  R  G  G  Y  F  I  G  N  V  S  P  A  H  M  D  F  R  W  F  C  L  G  N  C  I  S  I  L  S  S  L  A  T  P  E  Q  A  S  A  I  M  D  L  V  E  S  R  W  Q  E  L  V  G  E  M  P  L  K  I  C  Y  P  A  M  E  G  H  E  W  R  I  V  T  G  C  D  P  K  N  T  S  W  S  Y  H  N  G  G  T  W  P   : V  L  L  W  L  L  T  A  A  A  I  K  T  G  R  P  Q  I  A  R  R  A  I  E  L  A  E  S  R  L  L  K  D  S  W  P  E  Y  Y  D  G  K  L  G  R  F  I  G  K  Q  A  R  K  F  Q  T  W  S  I  A  G  Y  L  V  A  R  M  M  L  E  D  P  S  H  L  G  M  I  S  L  E  E  D  K  Q  M  K  P  T  M  K  R  S  A  S  W  T  C  *  Y  P  C  T  Q  I  F  F  R  M  P  C  F  F  F  L  S  F  C  N  S  *  T  L  S  F  S  L  S  Q  K   : S  T  K   </first_frame>
            <second_frame>  D  S  S  W  L  V  S  S  S  E  T  L  D  L  T  E  V  R  R  S  R  R  R  R  R  R  Y  F  E  :  I  F  G  F  D  F  L  L  S  R  T  F  G  S  I  G  R  C  L  A  L  W  M  C  L  K  M  G  M  Q  D  T  R  K  L  L  H  P  C  L  K  S  R  K  I  W  L  D  C  W  K  G  Q  D  K  L  I  L  K  G  R  G  R  S  M  K  D  L  S  A  K  C  Q  *  L  I  H  R  H  V  R  Y  T  K  I  R  R  T  L  L  V  F  L  I  I  W  L  E  C  I  H  Q  E  G  G  P  A  Y  T  H  P  D  Q  P  S  D  M  S  R  I  L  *  S  A  K  H  G  K  L  *  G  V  L  L  L  T  S  E  I  N  L  W  E  L  L  L  L  *  I  I  L  L  R  N  L  T  M  I  R :   F  L  S  E  I  L  S  P  A  L  W  H  S  *  *  M  V  N  L  I  *  *  R  I  F  F  *  K  P  C  A  S  N  L  G  R  R  R  *  T  S  S  S  W  G  M  E  L  C  L  Q  V  L  K  C  L  M  I  L  L  G  T  M  R  L  *  L  L  I  S  V  K  V  L  L  V  E  L  L  L  L  I  Q  G  S  G  G  L  Y  Y  F  V  H  T  Q  S  L  Q  G  T  L  L  W  L  R  C  Q  N  A  K  G  V  *  G  *  F  L  N  Y  V  S  L  K  V  L  I  H  S  Q  P  C  C  A  L  M  D  A  L  *  L  I  A  E  W :   V  S  M  A  I  L  L  K  Y  K  H  F  S  L  W  P  *  D  V  P  C  F  S  L  N  T  T  K  K  T  K  S  V  V  M  Q  *  L  N  D  F  M  L  *  A  F  T  *  E  V  T  I  G  S  T  *  N  N  *  M  I  Y  T  A  T  K  Q  K  S  T  L  T  L  Q  *  T  S  L  M  *  C  Q  I  P  F  R  S  G  F  L  I  S  C  Q  L  V  V  V  T  S  S  E  M  L  V  L  L  T  W  T  S  V  G  F  V  W  V  T  V  F  Q  S  C  H  L  W  L  H  L  S  K  L  P  P  *  W  I  S  L  N  Q  D  G  K  S  *  L  E  K  C  R  *  K  S  V  I  L  L  W  K  A  M  N  G  E  L  *  Q  D  A  T  L  K  T  L  V  G  V  T  T  M  V  A  L  G  Q  :  F  F  C  G  S  L  L  Q  Q  L  S  R  L  V  D  P  K  *  H  D  G  P  L  N  *  L  N  R  V  Y  *  K  I  A  G  Q  S  I  T  T  E  S  L  V  D  L  L  E  S  R  R  V  S  S  R  H  G  P  L  L  V  T  W  *  L  E  *  C  W  K  I  H  L  I  W  V  *  Y  H  L  K  K  I  N  R  *  S  L  P  *  K  D  L  L  L  G  L  V  N  I  L  V  H  K  F  S  F  E  C  H  A  F  F  F  S  L  F  A  I  R  K  H  S  L  L  V  C  R  K  N  :  Q  Q  N  </second_frame>
            <third_frame>   I  V  H  G  W  C  L  P  R  K  P  *  I  S  L  K  F  A  V  A  A  A  A  A  A  D  T  L  R :   S  L  D  S  I  S  Y  C  L  G  L  L  E  V  L  E  D  A  *  P  C  G  C  V  S  K  W  E  C  K  T  R  G  S  C  S  I  L  V  *  N  R  G  R  F  G  *  I  A  G  K  A  K  T  S  *  Y  *  K  E  E  V  V  R  *  K  I  F  Q  R  N  V  N  D  S  F  T  A  T  S  G  I  Q  K  F  G  E  L  F  S  C  F  *  *  Y  G  W  S  V  F  T  R  K  V  V  R  H  T  H  T  Q  I  N  L  R  I  *  A  A  S  Y  N  R  R  S  M  G  S  F  E  A  F  Y  C  *  L  P  R  S  T  C  G  N  Y  C  C  Y  R  *  F  C  *  G  T  *  L  *  S   : G  F  C  Q  R  F  C  P  Q  R  F  G  I  L  D  E  W  *  T  *  Y  S  K  E  F  S  F  E  N  L  A  P  P  I  S  G  E  E  D  R  P  V  Q  V  G  G  W  S  Y  A  C  K  F  *  S  V  S  *  S  C  *  E  L  *  D  Y  N  C  *  F  R  *  K  C  Y  W  *  S  C  S  C  *  F  R  V  L  V  D  Y  T  T  S  C  I  H  K  V  Y  R  G  H  F  F  G  *  D  A  R  M  P  K  G  Y  K  A  D  S  *  I  M  S  L  *  R  F  *  Y  I  P  N  P  A  V  R  *  W  M  L  Y  D  *  S  Q  N   : G  C  L  W  L  S  Y  *  N  T  S  T  F  L  Y  G  L  K  M  C  L  V  S  P  *  T  R  R  R  K  P  R  V  L  *  C  N  N  *  T  T  S  C  F  K  L  S  H  E  K  L  L  L  A  R  H  K  T  T  E  *  Y  I  P  L  Q  N  R  R  V  L  S  H  C  S  K  Q  V  *  C  D  A  R  F  P  S  G  V  G  F  *  F  H  A  N  S  W  W  L  L  H  R  K  C  *  S  C  S  H  G  L  P  L  V  L  F  G  *  L  Y  F  N  L  V  I  F  G  Y  T  *  A  S  F  R  H  N  G  S  R  *  I  K  M  A  R  A  S  W  R  N  A  A  E  N  L  L  S  C  Y  G  R  P  *  M  E  N  C  N  R  M  R  P  *  K  H  *  L  E  L  P  Q  W  W  H  L  A  S :   S  S  V  A  P  Y  C  S  S  Y  Q  D  W  S  T  P  N  S  T  T  G  H  *  T  S  *  I  A  F  T  K  R  *  L  A  R  V  L  R  R  K  A  W  S  I  Y  W  K  A  G  A  *  V  P  D  M  V  H  C  W  L  L  G  S  *  N  D  A  G  R  S  I  S  F  G  Y  D  I  T  *  R  R  *  T  D  E  A  Y  H  E  K  I  C  F  L  D  L  L  I  S  L  Y  T  N  F  L  S  N  A  M  L  F  F  S  L  F  L  Q  F  V  N  T  L  F  *  F  V  A  K  I :   N  K  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="71385" stop="70939"/>
                    <exon start="70216" stop="69785"/>
                    <exon start="68950" stop="68392"/>
                    <exon start="68006" stop="67711"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1731</number_coding_nucleotides>
                  <number_encoded_amino_acids>577</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DFWKYWKMPSPVDVSQNGNARHAEAAPSLFEIEEDLARLLERPRQVNIERKRSFDERSFSEMSMTHSPPRQVYKNSENSSRVFDNMVGVYSPGRWSGIHTPRSTFGYEPHPIIGEAWEALRRSIVNFRDQPVGTIAAIDNSAEELNYDQVFVRDFVPSALAFLMNGEPDIVKNFLLKTLRLQSREKKIDQFKLGDGVMPASFKVSHDPVRNYETITADFGESAIGRVAPVDSGFWWIILLRAYTKSTGDTSLAEMPECQRGIRLILELCLSEGFDTFPTLLCADGCSMIDRRMGVYGYPIEIQALFFMALRCALFLLKHDEENQECCDAIIKRLHALSFHMRSYYWLDIKQLNDIYRYKTEEYSHTAVNKFNVMPDSLPEWVFDFMPTRGGYFIGNVSPAHMDFRWFCLGNCISILSSLATPEQASAIMDLVESRWQELVGEMPLKICYPAMEGHEWRIVTGCDPKNTSWSYHNGGTWPVLLWLLTAAAIKTGRPQIARRAIELAESRLLKDSWPEYYDGKLGRFIGKQARKFQTWSIAGYLVARMMLEDPSHLGMISLEEDKQMKPTMKRSASWTC*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="72133" e_stop="72067"/>
            <exon e_start="71414" e_stop="70939"/>
            <exon e_start="70855" e_stop="70850"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.522" e_score="0.985"/>
          <exon-intron don_prob="1.000" acc_prob="0.956" e_score="1.000"/>
          <exon-only e_score="0.500"/>
        </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="72133" e_stop="72067" e_length="67"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.522">
            <gDNA_intron_boundary i_start="72066" i_stop="71415" i_length="652"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="71414" e_stop="70939" e_length="476"/>
          </exon>
          <intron i_serial="2" don_prob="1.000" acc_prob="0.956">
            <gDNA_intron_boundary i_start="70938" i_stop="70856" i_length="83"/>
          </intron>
          <exon e_serial="3" e_score="0.500">
            <gDNA_exon_boundary e_start="70855" e_stop="70850" e_length="6"/>
          </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="72133" stop="72067"/>
              <exon start="71414" stop="70942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E306616" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="72126" stop="72067"/>
              <exon start="71414" stop="70939"/>
              <exon start="70855" stop="70850"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E312238" 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="13" AGS_serial="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TTCCTCGGAAACCTTAGATCTCACTGAAGTTCGCCGTAGCCGCCGCCGCCGCCGCCGATACTTTGAG : ATCTTTGGATTCGATTTCTTATTGTCTAGGACTTTTGGAAGTATTGGAAGATGCCTAGCCCTGTGGATGTGTCTCAAAATGGGAATGCAAGACACGCGGAAGCTGCTCCATCCTTGTTTGAAATCGAGGAAGATTTGGCTAGATTGCTGGAAAGGCCAAGACAAGTTAATATTGAAAGGAAGAGGTCGTTCGATGAAAGATCTTTCAGCGAAATGTCAATGACTCATTCACCGCCACGTCAGGTATACAAAAATTCGGAGAACTCTTCTCGTGTTTTTGATAATATGGTTGGAGTGTATTCACCAGGAAGGTGGTCCGGCATACACACACCCAGATCAACCTTCGGATATGAGCCGCATCCTATAATCGGCGAAGCATGGGAAGCTTTGAGGCGTTCTATTGTTAACTTCCGAGATCAACCTGTGGGAACTATTGCTGCTATAGATAATTCTGCTGAGGAACTTAACTATGATCAG : GTCGAT</gDNA_template>
            <first_frame> F  L  G  N  L  R  S  H  *  S  S  P  *  P  P  P  P  P  P  I  L  *   : D  L  W  I  R  F  L  I  V  *  D  F  W  K  Y  W  K  M  P  S  P  V  D  V  S  Q  N  G  N  A  R  H  A  E  A  A  P  S  L  F  E  I  E  E  D  L  A  R  L  L  E  R  P  R  Q  V  N  I  E  R  K  R  S  F  D  E  R  S  F  S  E  M  S  M  T  H  S  P  P  R  Q  V  Y  K  N  S  E  N  S  S  R  V  F  D  N  M  V  G  V  Y  S  P  G  R  W  S  G  I  H  T  P  R  S  T  F  G  Y  E  P  H  P  I  I  G  E  A  W  E  A  L  R  R  S  I  V  N  F  R  D  Q  P  V  G  T  I  A  A  I  D  N  S  A  E  E  L  N  Y  D  Q  :  V  D </first_frame>
            <second_frame>  S  S  E  T  L  D  L  T  E  V  R  R  S  R  R  R  R  R  R  Y  F  E  :  I  F  G  F  D  F  L  L  S  R  T  F  G  S  I  G  R  C  L  A  L  W  M  C  L  K  M  G  M  Q  D  T  R  K  L  L  H  P  C  L  K  S  R  K  I  W  L  D  C  W  K  G  Q  D  K  L  I  L  K  G  R  G  R  S  M  K  D  L  S  A  K  C  Q  *  L  I  H  R  H  V  R  Y  T  K  I  R  R  T  L  L  V  F  L  I  I  W  L  E  C  I  H  Q  E  G  G  P  A  Y  T  H  P  D  Q  P  S  D  M  S  R  I  L  *  S  A  K  H  G  K  L  *  G  V  L  L  L  T  S  E  I  N  L  W  E  L  L  L  L  *  I  I  L  L  R  N  L  T  M  I  R :   S   </second_frame>
            <third_frame>   P  R  K  P  *  I  S  L  K  F  A  V  A  A  A  A  A  A  D  T  L  R :   S  L  D  S  I  S  Y  C  L  G  L  L  E  V  L  E  D  A  *  P  C  G  C  V  S  K  W  E  C  K  T  R  G  S  C  S  I  L  V  *  N  R  G  R  F  G  *  I  A  G  K  A  K  T  S  *  Y  *  K  E  E  V  V  R  *  K  I  F  Q  R  N  V  N  D  S  F  T  A  T  S  G  I  Q  K  F  G  E  L  F  S  C  F  *  *  Y  G  W  S  V  F  T  R  K  V  V  R  H  T  H  T  Q  I  N  L  R  I  *  A  A  S  Y  N  R  R  S  M  G  S  F  E  A  F  Y  C  *  L  P  R  S  T  C  G  N  Y  C  C  Y  R  *  F  C  *  G  T  *  L  *  S   : G  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="13" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="71385" stop="70939"/>
                    <exon start="70855" stop="70850"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>453</number_coding_nucleotides>
                  <number_encoded_amino_acids>151</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>DFWKYWKMPSPVDVSQNGNARHAEAAPSLFEIEEDLARLLERPRQVNIERKRSFDERSFSEMSMTHSPPRQVYKNSENSSRVFDNMVGVYSPGRWSGIHTPRSTFGYEPHPIIGEAWEALRRSIVNFRDQPVGTIAAIDNSAEELNYDQVD</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="14" PGL_strand="+" PGL_start="67580" PGL_stop="68004"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="67580" e_stop="68004"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="1.000">
            <gDNA_exon_boundary e_start="67580" e_stop="68004" e_length="425"/>
          </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="67580" stop="68004"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E210023" 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="14" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTGTACAATCTCGTAGCCAATTCATAAAAAATTCAACATTTTTGCGACAAACTAAAAGAGAGTGTTTACGAATTGCAAAAAGAGAGAAAAAAAAAGCATGGCATTCGAAAGAAAATTTGTGTACAAGGATATTAACAAGTCCAAGAAGCAGATCTTTTCATGGTAGGCTTCATCTGTTTATCTTCTTCAAGTGATATCATACCCAAATGAGATGGATCTTCCAGCATCATTCTAGCTACCAAGTAACCAGCAATGGACCATGTCTGGAACTTACGCGCCTGCTTTCCAATAAATCGACCAAGCTTTCCGTCGTAATACTCTGGCCAGCTATCTTTTAGTAAACGCGATTCAGCTAGTTCAATGGCCCGTCGTGCTATTTGGGGTCGACCAGTCTTGATAGCTGCTGCAGTAAGGAGCCACAGAAG</gDNA_template>
            <first_frame> V  Y  N  L  V  A  N  S  *  K  I  Q  H  F  C  D  K  L  K  E  S  V  Y  E  L  Q  K  E  R  K  K  K  H  G  I  R  K  K  I  C  V  Q  G  Y  *  Q  V  Q  E  A  D  L  F  M  V  G  F  I  C  L  S  S  S  S  D  I  I  P  K  *  D  G  S  S  S  I  I  L  A  T  K  *  P  A  M  D  H  V  W  N  L  R  A  C  F  P  I  N  R  P  S  F  P  S  *  Y  S  G  Q  L  S  F  S  K  R  D  S  A  S  S  M  A  R  R  A  I  W  G  R  P  V  L  I  A  A  A  V  R  S  H  R   </first_frame>
            <second_frame>  C  T  I  S  *  P  I  H  K  K  F  N  I  F  A  T  N  *  K  R  V  F  T  N  C  K  K  R  E  K  K  S  M  A  F  E  R  K  F  V  Y  K  D  I  N  K  S  K  K  Q  I  F  S  W  *  A  S  S  V  Y  L  L  Q  V  I  S  Y  P  N  E  M  D  L  P  A  S  F  *  L  P  S  N  Q  Q  W  T  M  S  G  T  Y  A  P  A  F  Q  *  I  D  Q  A  F  R  R  N  T  L  A  S  Y  L  L  V  N  A  I  Q  L  V  Q  W  P  V  V  L  F  G  V  D  Q  S  *  *  L  L  Q  *  G  A  T  E  </second_frame>
            <third_frame>   V  Q  S  R  S  Q  F  I  K  N  S  T  F  L  R  Q  T  K  R  E  C  L  R  I  A  K  R  E  K  K  K  A  W  H  S  K  E  N  L  C  T  R  I  L  T  S  P  R  S  R  S  F  H  G  R  L  H  L  F  I  F  F  K  *  Y  H  T  Q  M  R  W  I  F  Q  H  H  S  S  Y  Q  V  T  S  N  G  P  C  L  E  L  T  R  L  L  S  N  K  S  T  K  L  S  V  V  I  L  W  P  A  I  F  *  *  T  R  F  S  *  F  N  G  P  S  C  Y  L  G  S  T  S  L  D  S  C  C  S  K  E  P  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/">
            <none gDNA_id="C04HBa0331L22.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="15" PGL_strand="+" PGL_start="75000" PGL_stop="77368"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="75000" e_stop="75252"/>
            <exon e_start="75358" e_stop="75469"/>
            <exon e_start="76971" e_stop="77044"/>
            <exon e_start="77176" e_stop="77368"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.965" acc_prob="0.999" e_score="0.988"/>
          <exon-intron don_prob="0.890" acc_prob="0.899" e_score="0.991"/>
          <exon-intron don_prob="0.988" acc_prob="0.989" e_score="0.959"/>
          <exon-only e_score="0.953"/>
        </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="0.988">
            <gDNA_exon_boundary e_start="75000" e_stop="75252" e_length="253"/>
          </exon>
          <intron i_serial="1" don_prob="0.965" acc_prob="0.999">
            <gDNA_intron_boundary i_start="75253" i_stop="75357" i_length="105"/>
          </intron>
          <exon e_serial="2" e_score="0.991">
            <gDNA_exon_boundary e_start="75358" e_stop="75469" e_length="112"/>
          </exon>
          <intron i_serial="2" don_prob="0.890" acc_prob="0.899">
            <gDNA_intron_boundary i_start="75470" i_stop="76970" i_length="1501"/>
          </intron>
          <exon e_serial="3" e_score="0.959">
            <gDNA_exon_boundary e_start="76971" e_stop="77044" e_length="74"/>
          </exon>
          <intron i_serial="3" don_prob="0.988" acc_prob="0.989">
            <gDNA_intron_boundary i_start="77045" i_stop="77175" i_length="131"/>
          </intron>
          <exon e_serial="4" e_score="0.953">
            <gDNA_exon_boundary e_start="77176" e_stop="77368" e_length="193"/>
          </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="75000" stop="75252"/>
              <exon start="75358" stop="75469"/>
              <exon start="76971" stop="77044"/>
              <exon start="77176" stop="77368"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340707" 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="15" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TCCATTGCGCTCTCTCTCTTTCAAACTCTAAAAGTTTCTTCAATCTGCAATGGCGAAGTCCAAAAAACCAAAAAATTCTTCCGATAGAGAAAAATGGAACAAAGTGTTCAATGCTTTAGTTCACATGTTGACATCACAGCAGACGCAGCTTGAATCCCTTGCAAAAGAGAGAATGATTCTTGAAGATCGGATAAAATTACAGAATGATCGATGGGTATCTGATATTCATAGATTTCAAGAACAAATTTATGAG : ATGAGGAAAAACTTTACAATTCAAGAGATGGAGCGCATGCTTGAGGTTGCGAAATCGGAGTTTGTTGTTGGTTTGAAGCAACGAGATGTTGCCGTGTTCCAAAGAAAGCTCG : AAAATGCAGATGGTGAACTGGCTGACTTCAGAGAATGGTTTGACTACCTCTCTCAGAGATGCTCTGAGCCAAAT : GATGTACCAAATGCTGCAACAAATGAAAAGTCGGAGACAAGAAAGAAGGCTTGGGAAGATGAGGTGAGGAGGCTTAAAACAGAAAATGAGAAGCTTACTTCAGAGAAAAATTCTGAGATTTCTGCCCTCTTGGCAGAAAAGAATTTTATTTGGAACCAGTTCAACAAACTGGAGCACGACATGACTGAGCAAT</gDNA_template>
            <first_frame> S  I  A  L  S  L  F  Q  T  L  K  V  S  S  I  C  N  G  E  V  Q  K  T  K  K  F  F  R  *  R  K  M  E  Q  S  V  Q  C  F  S  S  H  V  D  I  T  A  D  A  A  *  I  P  C  K  R  E  N  D  S  *  R  S  D  K  I  T  E  *  S  M  G  I  *  Y  S  *  I  S  R  T  N  L  *   : D  E  E  K  L  Y  N  S  R  D  G  A  H  A  *  G  C  E  I  G  V  C  C  W  F  E  A  T  R  C  C  R  V  P  K  K  A  R :   K  C  R  W  *  T  G  *  L  Q  R  M  V  *  L  P  L  S  E  M  L  *  A  K   : *  C  T  K  C  C  N  K  *  K  V  G  D  K  K  E  G  L  G  R  *  G  E  E  A  *  N  R  K  *  E  A  Y  F  R  E  K  F  *  D  F  C  P  L  G  R  K  E  F  Y  L  E  P  V  Q  Q  T  G  A  R  H  D  *  A   </first_frame>
            <second_frame>  P  L  R  S  L  S  F  K  L  *  K  F  L  Q  S  A  M  A  K  S  K  K  P  K  N  S  S  D  R  E  K  W  N  K  V  F  N  A  L  V  H  M  L  T  S  Q  Q  T  Q  L  E  S  L  A  K  E  R  M  I  L  E  D  R  I  K  L  Q  N  D  R  W  V  S  D  I  H  R  F  Q  E  Q  I  Y  E  :  M  R  K  N  F  T  I  Q  E  M  E  R  M  L  E  V  A  K  S  E  F  V  V  G  L  K  Q  R  D  V  A  V  F  Q  R  K  L   : E  N  A  D  G  E  L  A  D  F  R  E  W  F  D  Y  L  S  Q  R  C  S  E  P  N  :  D  V  P  N  A  A  T  N  E  K  S  E  T  R  K  K  A  W  E  D  E  V  R  R  L  K  T  E  N  E  K  L  T  S  E  K  N  S  E  I  S  A  L  L  A  E  K  N  F  I  W  N  Q  F  N  K  L  E  H  D  M  T  E  Q  </second_frame>
            <third_frame>   H  C  A  L  S  L  S  N  S  K  S  F  F  N  L  Q  W  R  S  P  K  N  Q  K  I  L  P  I  E  K  N  G  T  K  C  S  M  L  *  F  T  C  *  H  H  S  R  R  S  L  N  P  L  Q  K  R  E  *  F  L  K  I  G  *  N  Y  R  M  I  D  G  Y  L  I  F  I  D  F  K  N  K  F  M  R :   *  G  K  T  L  Q  F  K  R  W  S  A  C  L  R  L  R  N  R  S  L  L  L  V  *  S  N  E  M  L  P  C  S  K  E  S  S  :  K  M  Q  M  V  N  W  L  T  S  E  N  G  L  T  T  S  L  R  D  A  L  S  Q  M :   M  Y  Q  M  L  Q  Q  M  K  S  R  R  Q  E  R  R  L  G  K  M  R  *  G  G  L  K  Q  K  M  R  S  L  L  Q  R  K  I  L  R  F  L  P  S  W  Q  K  R  I  L  F  G  T  S  S  T  N  W  S  T  T  *  L  S  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="15" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="75031" stop="75252"/>
                    <exon start="75358" stop="75469"/>
                    <exon start="76971" stop="77044"/>
                    <exon start="77176" stop="77367"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>600</number_coding_nucleotides>
                  <number_encoded_amino_acids>200</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KFLQSAMAKSKKPKNSSDREKWNKVFNALVHMLTSQQTQLESLAKERMILEDRIKLQNDRWVSDIHRFQEQIYEMRKNFTIQEMERMLEVAKSEFVVGLKQRDVAVFQRKLENADGELADFREWFDYLSQRCSEPNDVPNAATNEKSETRKKAWEDEVRRLKTENEKLTSEKNSEISALLAEKNFIWNQFNKLEHDMTEQ</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="16" PGL_strand="+" PGL_start="83404" PGL_stop="86332"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="83404" e_stop="83715"/>
            <exon e_start="83795" e_stop="83917"/>
            <exon e_start="83998" e_stop="84068"/>
            <exon e_start="85820" e_stop="86312"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.467" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="0.967" e_score="1.000"/>
          <exon-intron don_prob="0.919" acc_prob="0.999" 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="1.000">
            <gDNA_exon_boundary e_start="83404" e_stop="83715" e_length="312"/>
          </exon>
          <intron i_serial="1" don_prob="0.467" acc_prob="1.000">
            <gDNA_intron_boundary i_start="83716" i_stop="83794" i_length="79"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="83795" e_stop="83917" e_length="123"/>
          </exon>
          <intron i_serial="2" don_prob="0.984" acc_prob="0.967">
            <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="83998" e_stop="84068" e_length="71"/>
          </exon>
          <intron i_serial="3" don_prob="0.919" acc_prob="0.999">
            <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="85820" e_stop="86312" e_length="493"/>
          </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="83404" stop="83715"/>
              <exon start="83795" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="85932"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392665" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83795" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="86312"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E397924" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83797" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="86134"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E312950" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83900" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="86301"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357913" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="84010" stop="84068"/>
              <exon start="85820" stop="86311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E244645" 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="16" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CCTTCACACTTCACATTTTTACAGCTGATTTTTTCGAATTGAATCCTGAAAATGTCGTCTGAAGACTCAAAGCCAGTGAGGAAAGTGGAAAGTGACGACGGAGAAAGCATTGGGTCTCTTTTTAACAGCAAAAAGAAACCTAACAATAATGCCGCTTCAAAATCTCAGCCTCTCAAAAAAGCTAAGATTAAGAAAGAAGAAAAAGATGATGATTTCGAAGAACCCATTTCGAAAAAGAGTCCAAAAATTGTTAAGCCCAAGAAGGAAGAACCTTCACCCGTGTCAAAGAAAAGTTCGAGTAGAACTGATAAA : AAAGTTGTAAAGAAAGAGGAAGAGGATAAGAAGAAAGGAACCAAAAATGGAGACACCGTTGTGAAGAAGAAGGAAAAGAAAGTTTATGATTTGCCTGGACAGAAGAGAGACGCTCCTGAGGAA : AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG : GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACTT</gDNA_template>
            <first_frame> P  S  H  F  T  F  L  Q  L  I  F  S  N  *  I  L  K  M  S  S  E  D  S  K  P  V  R  K  V  E  S  D  D  G  E  S  I  G  S  L  F  N  S  K  K  K  P  N  N  N  A  A  S  K  S  Q  P  L  K  K  A  K  I  K  K  E  E  K  D  D  D  F  E  E  P  I  S  K  K  S  P  K  I  V  K  P  K  K  E  E  P  S  P  V  S  K  K  S  S  S  R  T  D  K  :  K  V  V  K  K  E  E  E  D  K  K  K  G  T  K  N  G  D  T  V  V  K  K  K  E  K  K  V  Y  D  L  P  G  Q  K  R  D  A  P  E  E  :  R  D  P  L  R  I  F  Y  E  S  L  Y  Q  Q  V  P  E  S  E  L  A  A  I  W :   M  M  E  S  G  L  L  P  K  D  L  A  K  K  V  F  E  K  K  Q  K  K  A  Q  Q  L  K  L  G  S  P  L  K  T  V  V  T  V  K  K  T  T  E  S  V  T  I  K  K  T  T  S  S  S  T  T  P  S  T  Q  K  K  K  T  P  D  S  G  K  T  E  S  M  Q  R  S  K  K  R  K  L  K  D  D  S  S  E  E  D  S  D  D  G  F  I  A  T  L  K  S  T  K  R  Q  K  A  S  *  C  F  *  W  L  S  E  I  V  D  E  K  L  N  T  L  L  H  A  F  Q  F  L  H  Y  V  K  V  D  L  C  S  L  I  F  S  I  V  F  F  Q  A  L  N  F  E  Y  N  *  K  K  M  Y  L  K  L </first_frame>
            <second_frame>  L  H  T  S  H  F  Y  S  *  F  F  R  I  E  S  *  K  C  R  L  K  T  Q  S  Q  *  G  K  W  K  V  T  T  E  K  A  L  G  L  F  L  T  A  K  R  N  L  T  I  M  P  L  Q  N  L  S  L  S  K  K  L  R  L  R  K  K  K  K  M  M  I  S  K  N  P  F  R  K  R  V  Q  K  L  L  S  P  R  R  K  N  L  H  P  C  Q  R  K  V  R  V  E  L  I  K :   K  L  *  R  K  R  K  R  I  R  R  K  E  P  K  M  E  T  P  L  *  R  R  R  K  R  K  F  M  I  C  L  D  R  R  E  T  L  L  R  K :   E  T  L  *  G  F  S  M  N  P  C  I  S  K  C  Q  K  V  N  *  Q  L  F   : G  *  W  S  Q  V  C  F  Q  R  T  W  R  R  K  F  L  R  R  N  K  R  R  P  S  S  *  S  L  V  H  L  *  K  R  L  *  L  *  K  R  P  R  S  L  L  L  L  R  R  Q  H  P  R  Q  P  R  H  Q  H  R  K  R  K  H  Q  I  L  E  K  R  N  Q  C  S  G  Q  R  N  G  S  L  R  M  I  L  L  K  K  T  Q  M  M  V  S  L  Q  L  L  K  A  Q  R  D  R  K  P  L  D  V  S  N  G  L  V  K  L  *  M  R  N  *  I  L  C  Y  M  H  F  N  F  S  I  M  *  K  L  T  F  V  L  S  F  S  P  L  C  F  S  R  L  *  T  L  N  T  I  K  K  K  C  I  S  N   </second_frame>
            <third_frame>   F  T  L  H  I  F  T  A  D  F  F  E  L  N  P  E  N  V  V  *  R  L  K  A  S  E  E  S  G  K  *  R  R  R  K  H  W  V  S  F  *  Q  Q  K  E  T  *  Q  *  C  R  F  K  I  S  A  S  Q  K  S  *  D  *  E  R  R  K  R  *  *  F  R  R  T  H  F  E  K  E  S  K  N  C  *  A  Q  E  G  R  T  F  T  R  V  K  E  K  F  E  *  N  *  *   : K  S  C  K  E  R  G  R  G  *  E  E  R  N  Q  K  W  R  H  R  C  E  E  E  G  K  E  S  L  *  F  A  W  T  E  E  R  R  S  *  G   : K  R  P  F  K  D  F  L  *  I  L  V  S  A  S  A  R  K  *  T  S  S  Y  L  :  D  D  G  V  R  F  A  S  K  G  L  G  E  E  S  F  *  E  E  T  K  E  G  P  A  A  K  A  W  F  T  S  E  N  G  C  D  C  E  K  D  H  G  V  C  Y  Y  *  E  D  N  I  L  V  N  H  A  I  N  T  E  K  E  N  T  R  F  W  K  N  G  I  N  A  A  V  K  E  T  E  A  *  G  *  F  F  *  R  R  L  R  *  W  F  H  C  N  S  *  K  H  K  E  T  E  S  L  L  M  F  L  M  A  *  *  N  C  R  *  E  I  K  Y  S  V  T  C  I  S  I  S  P  L  C  K  S  *  P  L  F  S  H  F  L  H  C  V  F  P  G  S  K  L  *  I  Q  L  K  K  N  V  S  Q  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="83446" stop="83715"/>
                    <exon start="83795" stop="83917"/>
                    <exon start="83998" stop="84068"/>
                    <exon start="85820" stop="86144"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>786</number_coding_nucleotides>
                  <number_encoded_amino_acids>262</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ILKMSSEDSKPVRKVESDDGESIGSLFNSKKKPNNNAASKSQPLKKAKIKKEEKDDDFEEPISKKSPKIVKPKKEEPSPVSKKSSSRTDKKVVKKEEEDKKKGTKNGDTVVKKKEKKVYDLPGQKRDAPEERDPLRIFYESLYQQVPESELAAIWMMESGLLPKDLAKKVFEKKQKKAQQLKLGSPLKTVVTVKKTTESVTIKKTTSSSTTPSTQKKKTPDSGKTESMQRSKKRKLKDDSSEEDSDDGFIATLKSTKRQKAS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="83795" e_stop="83800"/>
            <exon e_start="83895" e_stop="83917"/>
            <exon e_start="83998" e_stop="84068"/>
            <exon e_start="85820" e_stop="86332"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.667"/>
          <exon-intron don_prob="0.984" acc_prob="0.967" e_score="1.000"/>
          <exon-intron don_prob="0.919" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </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="0.667">
            <gDNA_exon_boundary e_start="83795" e_stop="83800" e_length="6"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="83801" i_stop="83894" i_length="94"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="83895" e_stop="83917" e_length="23"/>
          </exon>
          <intron i_serial="2" don_prob="0.984" acc_prob="0.967">
            <gDNA_intron_boundary i_start="83918" i_stop="83997" i_length="80"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="83998" e_stop="84068" e_length="71"/>
          </exon>
          <intron i_serial="3" don_prob="0.919" acc_prob="0.999">
            <gDNA_intron_boundary i_start="84069" i_stop="85819" i_length="1751"/>
          </intron>
          <exon e_serial="4" e_score="0.998">
            <gDNA_exon_boundary e_start="85820" e_stop="86332" e_length="513"/>
          </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="83795" stop="83800"/>
              <exon start="83895" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="86332"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E353023" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="83900" stop="83917"/>
              <exon start="83998" stop="84068"/>
              <exon start="85820" stop="86301"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357913" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="84010" stop="84068"/>
              <exon start="85820" stop="86311"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E244645" 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="16" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AAAGTT : AGAAGAGAGACGCTCCTGAGGAA : AGAGACCCTTTAAGGATTTTCTATGAATCCTTGTATCAGCAAGTGCCAGAAAGTGAACTAGCAGCTATTTG : GATGATGGAGTCAGGTTTGCTTCCAAAGGACTTGGCGAAGAAAGTTTTTGAGAAGAAACAAAAGAAGGCCCAGCAGCTAAAGCTTGGTTCACCTCTGAAAACGGTTGTGACTGTGAAAAAGACCACGGAGTCTGTTACTATTAAGAAGACAACATCCTCGTCAACCACGCCATCAACACAGAAAAAGAAAACACCAGATTCTGGAAAAACGGAATCAATGCAGCGGTCAAAGAAACGGAAGCTTAAGGATGATTCTTCTGAAGAAGACTCAGATGATGGTTTCATTGCAACTCTTAAAAGCACAAAGAGACAGAAAGCCTCTTGATGTTTCTAATGGCTTAGTGAAATTGTAGATGAGAAATTAAATACTCTGTTACATGCATTTCAATTTCTCCATTATGTAAAAGTTGACCTTTGTTCTCTCATTTTCTCCATTGTGTTTTTCCAGGCTCTAAACTTTGAATACAATTAAAAAAAAATGTATCTCAAACTTCATTCATTGCCCTTAAGAAA</gDNA_template>
            <first_frame> K  V  :  R  R  E  T  L  L  R  K :   E  T  L  *  G  F  S  M  N  P  C  I  S  K  C  Q  K  V  N  *  Q  L  F   : G  *  W  S  Q  V  C  F  Q  R  T  W  R  R  K  F  L  R  R  N  K  R  R  P  S  S  *  S  L  V  H  L  *  K  R  L  *  L  *  K  R  P  R  S  L  L  L  L  R  R  Q  H  P  R  Q  P  R  H  Q  H  R  K  R  K  H  Q  I  L  E  K  R  N  Q  C  S  G  Q  R  N  G  S  L  R  M  I  L  L  K  K  T  Q  M  M  V  S  L  Q  L  L  K  A  Q  R  D  R  K  P  L  D  V  S  N  G  L  V  K  L  *  M  R  N  *  I  L  C  Y  M  H  F  N  F  S  I  M  *  K  L  T  F  V  L  S  F  S  P  L  C  F  S  R  L  *  T  L  N  T  I  K  K  K  C  I  S  N  F  I  H  C  P  *  E  </first_frame>
            <second_frame>  K  L :   E  E  R  R  S  *  G   : K  R  P  F  K  D  F  L  *  I  L  V  S  A  S  A  R  K  *  T  S  S  Y  L  :  D  D  G  V  R  F  A  S  K  G  L  G  E  E  S  F  *  E  E  T  K  E  G  P  A  A  K  A  W  F  T  S  E  N  G  C  D  C  E  K  D  H  G  V  C  Y  Y  *  E  D  N  I  L  V  N  H  A  I  N  T  E  K  E  N  T  R  F  W  K  N  G  I  N  A  A  V  K  E  T  E  A  *  G  *  F  F  *  R  R  L  R  *  W  F  H  C  N  S  *  K  H  K  E  T  E  S  L  L  M  F  L  M  A  *  *  N  C  R  *  E  I  K  Y  S  V  T  C  I  S  I  S  P  L  C  K  S  *  P  L  F  S  H  F  L  H  C  V  F  P  G  S  K  L  *  I  Q  L  K  K  N  V  S  Q  T  S  F  I  A  L  K  K </second_frame>
            <third_frame>   S   : *  K  R  D  A  P  E  E  :  R  D  P  L  R  I  F  Y  E  S  L  Y  Q  Q  V  P  E  S  E  L  A  A  I  W :   M  M  E  S  G  L  L  P  K  D  L  A  K  K  V  F  E  K  K  Q  K  K  A  Q  Q  L  K  L  G  S  P  L  K  T  V  V  T  V  K  K  T  T  E  S  V  T  I  K  K  T  T  S  S  S  T  T  P  S  T  Q  K  K  K  T  P  D  S  G  K  T  E  S  M  Q  R  S  K  K  R  K  L  K  D  D  S  S  E  E  D  S  D  D  G  F  I  A  T  L  K  S  T  K  R  Q  K  A  S  *  C  F  *  W  L  S  E  I  V  D  E  K  L  N  T  L  L  H  A  F  Q  F  L  H  Y  V  K  V  D  L  C  S  L  I  F  S  I  V  F  F  Q  A  L  N  F  E  Y  N  *  K  K  M  Y  L  K  L  H  S  L  P  L  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="16" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="83897" stop="83917"/>
                    <exon start="83998" stop="84068"/>
                    <exon start="85820" stop="86144"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>414</number_coding_nucleotides>
                  <number_encoded_amino_acids>138</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KRDAPEERDPLRIFYESLYQQVPESELAAIWMMESGLLPKDLAKKVFEKKQKKAQQLKLGSPLKTVVTVKKTTESVTIKKTTSSSTTPSTQKKKTPDSGKTESMQRSKKRKLKDDSSEEDSDDGFIATLKSTKRQKAS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="17" PGL_strand="-" PGL_start="86311" PGL_stop="85829"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="86311" e_stop="85829"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <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="0.994">
            <gDNA_exon_boundary e_start="86311" e_stop="85829" e_length="483"/>
          </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="86311" stop="85829"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E232067" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="86311" stop="85829"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E237492" 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="17" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AGTTTGAGATACATTTTTTTTTAATTGTATTCAAAGTTTAGAGCCTGGAAAAACACAATGGAGAAAATGAGAGAACAAAGGTCAACTTTTACATAATGGAGAAATTGAAATGCATGTAACAGAGTATTTAATTTCTCATCTACAATTTCACTAAGCCATTAGAAACATCAAGAGGCTTTCTGTCTCTTTGTGCTTTTAAGAGTTGCAATGAAACCATCATCTGAGTCTTCTTCAGAAGAATCATCCTTAAGCTTCCGTTTCTTTGACCGCTGCATTGATTCCGTTTTTCCAGAATCTGGTGTTTTCTTTTTCTGTGTTGATGGCGTGGTTGACGAGGATGTTGTCTTCTTAATAGTAACAGACTCCGTGGTCTTTTTCACAGTCACAACCGTTTTCAGAGGTGAACCAAGCTTTAGCTGCTGGGCCTTCTTTTGTTTCTTCTCAAAAACTTTCTTCGCCAAGTCCTTTGGAAGCAAACCTGAC</gDNA_template>
            <first_frame> S  L  R  Y  I  F  F  *  L  Y  S  K  F  R  A  W  K  N  T  M  E  K  M  R  E  Q  R  S  T  F  T  *  W  R  N  *  N  A  C  N  R  V  F  N  F  S  S  T  I  S  L  S  H  *  K  H  Q  E  A  F  C  L  F  V  L  L  R  V  A  M  K  P  S  S  E  S  S  S  E  E  S  S  L  S  F  R  F  F  D  R  C  I  D  S  V  F  P  E  S  G  V  F  F  F  C  V  D  G  V  V  D  E  D  V  V  F  L  I  V  T  D  S  V  V  F  F  T  V  T  T  V  F  R  G  E  P  S  F  S  C  W  A  F  F  C  F  F  S  K  T  F  F  A  K  S  F  G  S  K  P  D </first_frame>
            <second_frame>  V  *  D  T  F  F  F  N  C  I  Q  S  L  E  P  G  K  T  Q  W  R  K  *  E  N  K  G  Q  L  L  H  N  G  E  I  E  M  H  V  T  E  Y  L  I  S  H  L  Q  F  H  *  A  I  R  N  I  K  R  L  S  V  S  L  C  F  *  E  L  Q  *  N  H  H  L  S  L  L  Q  K  N  H  P  *  A  S  V  S  L  T  A  A  L  I  P  F  F  Q  N  L  V  F  S  F  S  V  L  M  A  W  L  T  R  M  L  S  S  *  *  *  Q  T  P  W  S  F  S  Q  S  Q  P  F  S  E  V  N  Q  A  L  A  A  G  P  S  F  V  S  S  Q  K  L  S  S  P  S  P  L  E  A  N  L   </second_frame>
            <third_frame>   F  E  I  H  F  F  L  I  V  F  K  V  *  S  L  E  K  H  N  G  E  N  E  R  T  K  V  N  F  Y  I  M  E  K  L  K  C  M  *  Q  S  I  *  F  L  I  Y  N  F  T  K  P  L  E  T  S  R  G  F  L  S  L  C  A  F  K  S  C  N  E  T  I  I  *  V  F  F  R  R  I  I  L  K  L  P  F  L  *  P  L  H  *  F  R  F  S  R  I  W  C  F  L  F  L  C  *  W  R  G  *  R  G  C  C  L  L  N  S  N  R  L  R  G  L  F  H  S  H  N  R  F  Q  R  *  T  K  L  *  L  L  G  L  L  L  F  L  L  K  N  F  L  R  Q  V  L  W  K  Q  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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="17" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="86149" stop="85829"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>321</number_coding_nucleotides>
                  <number_encoded_amino_acids>107</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KHQEAFCLFVLLRVAMKPSSESSSEESSLSFRFFDRCIDSVFPESGVFFFCVDGVVDEDVVFLIVTDSVVFFTVTTVFRGEPSFSCWAFFCFFSKTFFAKSFGSKPD</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="18" PGL_strand="+" PGL_start="89575" PGL_stop="89993"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="89575" e_stop="89993"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.914"/>
        </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="0.914">
            <gDNA_exon_boundary e_start="89575" e_stop="89993" e_length="419"/>
          </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="89575" stop="89993"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200845" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="89575" stop="89868"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393076" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="89575" stop="89852"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E393075" 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="18" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TGTATAGCAAGAAGATATATGTTTTTCTTTCGCTTTATACAAAAACAGAAACACAATATATACACTTCTGTTGTATAAAGCTAGAGAAAATTGTATTTCACTTCAATTGTATAATTCGCAATTGTATAATTCGTTGACCTTTTTCTCTGCAATACTTGAAGTAAAATGTTTGTAAATTGTATAATTAAGTGTATAACACGAAAATATATATTTTTGCATGTGTATACACAATTTTCTCTCGCTTTATACAAAATAGAAACAGAATTATACACTTCTGTGTATAAAGCGAGAGAGGAGAGCGAGAATGGAGAGTGGCGAGCGAGATTTCTGGGAAAGAGACGCTGGCAAATTTTAGCTAACGTTTGCTATGGAACACAATTAAATCAAACCTAGCTATTCCATTTATTTTAGGTTATTAA</gDNA_template>
            <first_frame> C  I  A  R  R  Y  M  F  F  F  R  F  I  Q  K  Q  K  H  N  I  Y  T  S  V  V  *  S  *  R  K  L  Y  F  T  S  I  V  *  F  A  I  V  *  F  V  D  L  F  L  C  N  T  *  S  K  M  F  V  N  C  I  I  K  C  I  T  R  K  Y  I  F  L  H  V  Y  T  Q  F  S  L  A  L  Y  K  I  E  T  E  L  Y  T  S  V  Y  K  A  R  E  E  S  E  N  G  E  W  R  A  R  F  L  G  K  R  R  W  Q  I  L  A  N  V  C  Y  G  T  Q  L  N  Q  T  *  L  F  H  L  F  *  V  I   </first_frame>
            <second_frame>  V  *  Q  E  D  I  C  F  S  F  A  L  Y  K  N  R  N  T  I  Y  T  L  L  L  Y  K  A  R  E  N  C  I  S  L  Q  L  Y  N  S  Q  L  Y  N  S  L  T  F  F  S  A  I  L  E  V  K  C  L  *  I  V  *  L  S  V  *  H  E  N  I  Y  F  C  M  C  I  H  N  F  L  S  L  Y  T  K  *  K  Q  N  Y  T  L  L  C  I  K  R  E  R  R  A  R  M  E  S  G  E  R  D  F  W  E  R  D  A  G  K  F  *  L  T  F  A  M  E  H  N  *  I  K  P  S  Y  S  I  Y  F  R  L  L  </second_frame>
            <third_frame>   Y  S  K  K  I  Y  V  F  L  S  L  Y  T  K  T  E  T  Q  Y  I  H  F  C  C  I  K  L  E  K  I  V  F  H  F  N  C  I  I  R  N  C  I  I  R  *  P  F  S  L  Q  Y  L  K  *  N  V  C  K  L  Y  N  *  V  Y  N  T  K  I  Y  I  F  A  C  V  Y  T  I  F  S  R  F  I  Q  N  R  N  R  I  I  H  F  C  V  *  S  E  R  G  E  R  E  W  R  V  A  S  E  I  S  G  K  E  T  L  A  N  F  S  *  R  L  L  W  N  T  I  K  S  N  L  A  I  P  F  I  L  G  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="18" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="89734" stop="89967"/>
                  </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>SKMFVNCIIKCITRKYIFLHVYTQFSLALYKIETELYTSVYKAREESENGEWRARFLGKRRWQILANVCYGTQLNQT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="19" PGL_strand="+" PGL_start="91473" PGL_stop="93145"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="91473" e_stop="91848"/>
            <exon e_start="92203" e_stop="92265"/>
            <exon e_start="92376" e_stop="92450"/>
            <exon e_start="92813" e_stop="93145"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.979" e_score="1.000"/>
          <exon-only e_score="0.985"/>
        </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="91473" e_stop="91848" e_length="376"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.988">
            <gDNA_intron_boundary i_start="91849" i_stop="92202" i_length="354"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="92203" e_stop="92265" e_length="63"/>
          </exon>
          <intron i_serial="2" don_prob="0.998" acc_prob="0.991">
            <gDNA_intron_boundary i_start="92266" i_stop="92375" i_length="110"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="92376" e_stop="92450" e_length="75"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.979">
            <gDNA_intron_boundary i_start="92451" i_stop="92812" i_length="362"/>
          </intron>
          <exon e_serial="4" e_score="0.985">
            <gDNA_exon_boundary e_start="92813" e_stop="93145" e_length="333"/>
          </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="91473" stop="91848"/>
              <exon start="92203" stop="92265"/>
              <exon start="92376" stop="92450"/>
              <exon start="92813" stop="93121"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E545356" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91474" stop="91848"/>
              <exon start="92203" stop="92265"/>
              <exon start="92376" stop="92436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E309811" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="91624" stop="91848"/>
              <exon start="92203" stop="92265"/>
              <exon start="92376" stop="92450"/>
              <exon start="92813" stop="93145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321354" 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="19" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTCAGAACCGCCGCAAAATTCAACAAGAATGAAAAACAGCAAGCAGAACGAACTGTGTGATTTGTTTCGTAATCCATCTAAAGATGAAATTGAAGTAGTAAAAATTCTACTCGATCTCGAAAATCTAGTGAGAGAAAGACAATATTGTTCGGTAATTTGGGGTTCCAAGAAGAGGAGATCTAATCGACGAATCGATTCTTCTTCTTCTCCCGTCGTCAACTCATCAAGTAGTTCGAAAATCGATGGAAACGAAATTGAACCCAAAATTAAAGCTGAAGTTACTAGCCCTGCTAGCCCTGCTACTCCTCTTTCATTTTCCCCAAGTGAATCTGATGAAAAATCCAAACATTCTTCTCGCAGAAGCTATAAACGAAAG : ACGAGGGAGGAGCTAATGGATAAAATAAAACAATTATCTCAATGCAGAGAATCGCTTACAGGG : GAAGTGGAGAATGTTCGTAATTACTACAATAATCAAAAAGCTTACAATATGAAGTTGAAAGCAATGAAAGAAGAG : GTAACAAGAATGGTGAATTTCCAAGGGGGTGGTGTTAATTTAGGTCAACTTTACTCTAATCCTGGAATAGAGCCCAATCGTCAACAGCCGTTCATTATGGATCAGGTTGCTTCAAGATCAGAAGCTATTCATAGATTTCAATACCCATTGGGCCAGCTGCAACAGGCCCAACATTTGTACTCAAATGGGTTGGGCCCAGGCCCAATGGGCCTTCCTGATCTGAATGTTAAGGTGGAAGAGGCTTTCGCATTGGACCAGTTCGATATCGATAGAATGAATGTTGAAAGGAAGGCCCAATATGCTGAAGCTAGAAGGAAGAGGAGGATTAAAAGA</gDNA_template>
            <first_frame> F  R  T  A  A  K  F  N  K  N  E  K  Q  Q  A  E  R  T  V  *  F  V  S  *  S  I  *  R  *  N  *  S  S  K  N  S  T  R  S  R  K  S  S  E  R  K  T  I  L  F  G  N  L  G  F  Q  E  E  E  I  *  S  T  N  R  F  F  F  F  S  R  R  Q  L  I  K  *  F  E  N  R  W  K  R  N  *  T  Q  N  *  S  *  S  Y  *  P  C  *  P  C  Y  S  S  F  I  F  P  K  *  I  *  *  K  I  Q  T  F  F  S  Q  K  L  *  T  K   : D  E  G  G  A  N  G  *  N  K  T  I  I  S  M  Q  R  I  A  Y  R   : G  S  G  E  C  S  *  L  L  Q  *  S  K  S  L  Q  Y  E  V  E  S  N  E  R  R   : G  N  K  N  G  E  F  P  R  G  W  C  *  F  R  S  T  L  L  *  S  W  N  R  A  Q  S  S  T  A  V  H  Y  G  S  G  C  F  K  I  R  S  Y  S  *  I  S  I  P  I  G  P  A  A  T  G  P  T  F  V  L  K  W  V  G  P  R  P  N  G  P  S  *  S  E  C  *  G  G  R  G  F  R  I  G  P  V  R  Y  R  *  N  E  C  *  K  E  G  P  I  C  *  S  *  K  E  E  E  D  *  K  </first_frame>
            <second_frame>  S  E  P  P  Q  N  S  T  R  M  K  N  S  K  Q  N  E  L  C  D  L  F  R  N  P  S  K  D  E  I  E  V  V  K  I  L  L  D  L  E  N  L  V  R  E  R  Q  Y  C  S  V  I  W  G  S  K  K  R  R  S  N  R  R  I  D  S  S  S  S  P  V  V  N  S  S  S  S  S  K  I  D  G  N  E  I  E  P  K  I  K  A  E  V  T  S  P  A  S  P  A  T  P  L  S  F  S  P  S  E  S  D  E  K  S  K  H  S  S  R  R  S  Y  K  R  K  :  T  R  E  E  L  M  D  K  I  K  Q  L  S  Q  C  R  E  S  L  T  G  :  E  V  E  N  V  R  N  Y  Y  N  N  Q  K  A  Y  N  M  K  L  K  A  M  K  E  E  :  V  T  R  M  V  N  F  Q  G  G  G  V  N  L  G  Q  L  Y  S  N  P  G  I  E  P  N  R  Q  Q  P  F  I  M  D  Q  V  A  S  R  S  E  A  I  H  R  F  Q  Y  P  L  G  Q  L  Q  Q  A  Q  H  L  Y  S  N  G  L  G  P  G  P  M  G  L  P  D  L  N  V  K  V  E  E  A  F  A  L  D  Q  F  D  I  D  R  M  N  V  E  R  K  A  Q  Y  A  E  A  R  R  K  R  R  I  K  R </second_frame>
            <third_frame>   Q  N  R  R  K  I  Q  Q  E  *  K  T  A  S  R  T  N  C  V  I  C  F  V  I  H  L  K  M  K  L  K  *  *  K  F  Y  S  I  S  K  I  *  *  E  K  D  N  I  V  R  *  F  G  V  P  R  R  G  D  L  I  D  E  S  I  L  L  L  L  P  S  S  T  H  Q  V  V  R  K  S  M  E  T  K  L  N  P  K  L  K  L  K  L  L  A  L  L  A  L  L  L  L  F  H  F  P  Q  V  N  L  M  K  N  P  N  I  L  L  A  E  A  I  N  E  R :   R  G  R  S  *  W  I  K  *  N  N  Y  L  N  A  E  N  R  L  Q  G :   K  W  R  M  F  V  I  T  T  I  I  K  K  L  T  I  *  S  *  K  Q  *  K  K  R :   *  Q  E  W  *  I  S  K  G  V  V  L  I  *  V  N  F  T  L  I  L  E  *  S  P  I  V  N  S  R  S  L  W  I  R  L  L  Q  D  Q  K  L  F  I  D  F  N  T  H  W  A  S  C  N  R  P  N  I  C  T  Q  M  G  W  A  Q  A  Q  W  A  F  L  I  *  M  L  R  W  K  R  L  S  H  W  T  S  S  I  S  I  E  *  M  L  K  G  R  P  N  M  L  K  L  E  G  R  G  G  L  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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="19" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="91474" stop="91848"/>
                    <exon start="92203" stop="92265"/>
                    <exon start="92376" stop="92450"/>
                    <exon start="92813" stop="93145"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>846</number_coding_nucleotides>
                  <number_encoded_amino_acids>282</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SEPPQNSTRMKNSKQNELCDLFRNPSKDEIEVVKILLDLENLVRERQYCSVIWGSKKRRSNRRIDSSSSPVVNSSSSSKIDGNEIEPKIKAEVTSPASPATPLSFSPSESDEKSKHSSRRSYKRKTREELMDKIKQLSQCRESLTGEVENVRNYYNNQKAYNMKLKAMKEEVTRMVNFQGGGVNLGQLYSNPGIEPNRQQPFIMDQVASRSEAIHRFQYPLGQLQQAQHLYSNGLGPGPMGLPDLNVKVEEAFALDQFDIDRMNVERKAQYAEARRKRRIKR</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="20" PGL_strand="-" PGL_start="97574" PGL_stop="94897"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="97574" e_stop="97044"/>
            <exon e_start="96101" e_stop="95832"/>
            <exon e_start="95744" e_stop="94897"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.853" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.478" acc_prob="0.861" 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="1.000">
            <gDNA_exon_boundary e_start="97574" e_stop="97044" e_length="531"/>
          </exon>
          <intron i_serial="1" don_prob="0.853" acc_prob="0.999">
            <gDNA_intron_boundary i_start="97043" i_stop="96102" i_length="942"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="96101" e_stop="95832" e_length="270"/>
          </exon>
          <intron i_serial="2" don_prob="0.478" acc_prob="0.861">
            <gDNA_intron_boundary i_start="95831" i_stop="95745" i_length="87"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="95744" e_stop="94897" e_length="848"/>
          </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="97574" stop="97044"/>
              <exon start="96101" stop="95942"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698451" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97553" stop="97044"/>
              <exon start="96101" stop="95832"/>
              <exon start="95744" stop="94904"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745045" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97551" stop="97044"/>
              <exon start="96101" stop="95832"/>
              <exon start="95744" stop="94904"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746802" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97550" stop="97044"/>
              <exon start="96101" stop="96040"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310068" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97548" stop="97044"/>
              <exon start="96101" stop="96039"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321036" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97545" stop="97047"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293299" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97544" stop="97044"/>
              <exon start="96101" stop="95860"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317785" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97544" stop="97044"/>
              <exon start="96101" stop="95962"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E336130" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97544" stop="97044"/>
              <exon start="96101" stop="96001"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E336132" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97544" stop="97053"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E301139" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="97544" stop="97250"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321037" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
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          <PGS_line>
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        </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="20" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCATTACCACTAGAAATATCACTCTCTTTCCCATTTCTCCCTTCATCTTCATCTTCATCTTCATCTCTTCTTCTTCTTATTCTCTCATTCCTCTCATCAATTTTTTTCATCAAAAAAACTAAGAGAAAATGAGAGAAATTCTTCACATTCAAGGAGGACAATGTGGAAACCAAATCGGTTCCAAATTCTGGGAAGTTATCTGTGATGAACACGGTGTTGATCCTACCGGACGTTACAAAGGAACCGCCGCTGAGTCCGATCTTCAGCTTGAACGTATCAATGTTTATTTCAATGAAGCTTCTGGTGGACGTTATGTTCCTAGGGCGGTTTTGATGGATCTAGAGCCTGGTACGATGGATAGTATCAGATCTGGTCCCTATGGACAGATCTTCCGTCCTGATAACTTTGTCTTTGGACAGTCTGGTGCTGGTAATAACTGGGCCAAAGGTCATTATACTGAAGGCGCTGAGTTGATTGATGCTGTTCTAGATGTTGTTCGTAAAGAAGCGGAGAATTGTGATTGCTTGCAAG : GATTCCAGGTTTGCCACTCACTTGGTGGAGGGACTGGATCTGGCATGGGAACACTACTGATTTCCAAGGTAAGGGAGGAGTATCCAGACAGGATGATGCTCACATTCTCTGTTTTCCCTTCTCCAAAGGTGTCTGACACTGTTGTAGAACCATACAATGCTACACTGTCGGTGCACCAATTGGTGGAGAATGCCGATGAATGTATGGTCCTTGACAACGAAGCTCTATATGATATTTGTTTCAGAACTTTGAAGCTCACTACTCCAAGTT : TTGGTGACTTGAACCATTTGATCTCTGCAACCATGAGTGGTGTTACTTGCTGTTTGAGATTCCCTGGTCAGCTGAACTCAGACCTGAGGAAATTGGCTGTGAATTTAATTCCCTTCCCACGTCTTCACTTCTTCATGGTGGGATTTGCCCCACTAACCTCTCGTGGATCACAGCAATACATATCGCTAACAGTGCCAGAGCTTACTCAACAAATGTGGGATGCCAAGAACATGATGTGCGCGGCAGATCCCCGTCATGGACGTTACCTGACAGCTTCTGCCATGTTTAGGGGTAAGATGAGCACAAAGGAGGTAGATGAACAGATGATCAATGTGCAGAACAAGAACTCGTCCTACTTTGTTGAATGGATCCCTAACAATGTCAAGTCTAGTGTGTGTGATATCCCACCAACTGGGCTGAAGATGGCATCCACGTTTGTTGGAAATTCAACCTCCATTCAGGAGATGTTTAGAAGGGTGAGTGAGCAGTTTACTGCCATGTTCAGGCGCAAGGCTTTCTTGCATTGGTACACAGGTGAAGGAATGGATGAAATGGAGTTCACTGAAGCCGAGAGCAACATGAATGATTTGGTTGCAGAATATCAACAATACCAGGATGCTACAGCAGATGATGAGGAAGAGTATGATGATGATGAGGTTGCTGATGATCAATACCAATCCTAAAAACTTCTCTACATTTGATATATTGTTGGTTTGTTCAATTTCTGCCAAGTGAACTTGTTATGTTTCCTATTGTCTTCTCTTCATTTGAACTTTGTGTTTGGTTTGTTGAGAAATGAAATGTCTTTTATTGGTCTATATGAATATACTGTATTACAGTAGCTTCTT</gDNA_template>
            <first_frame> S  L  P  L  E  I  S  L  S  F  P  F  L  P  S  S  S  S  S  S  S  S  L  L  L  L  I  L  S  F  L  S  S  I  F  F  I  K  K  T  K  R  K  *  E  K  F  F  T  F  K  E  D  N  V  E  T  K  S  V  P  N  S  G  K  L  S  V  M  N  T  V  L  I  L  P  D  V  T  K  E  P  P  L  S  P  I  F  S  L  N  V  S  M  F  I  S  M  K  L  L  V  D  V  M  F  L  G  R  F  *  W  I  *  S  L  V  R  W  I  V  S  D  L  V  P  M  D  R  S  S  V  L  I  T  L  S  L  D  S  L  V  L  V  I  T  G  P  K  V  I  I  L  K  A  L  S  *  L  M  L  F  *  M  L  F  V  K  K  R  R  I  V  I  A  C  K  :  D  S  R  F  A  T  H  L  V  E  G  L  D  L  A  W  E  H  Y  *  F  P  R  *  G  R  S  I  Q  T  G  *  C  S  H  S  L  F  S  L  L  Q  R  C  L  T  L  L  *  N  H  T  M  L  H  C  R  C  T  N  W  W  R  M  P  M  N  V  W  S  L  T  T  K  L  Y  M  I  F  V  S  E  L  *  S  S  L  L  Q  V  :  L  V  T  *  T  I  *  S  L  Q  P  *  V  V  L  L  A  V  *  D  S  L  V  S  *  T  Q  T  *  G  N  W  L  *  I  *  F  P  S  H  V  F  T  S  S  W  W  D  L  P  H  *  P  L  V  D  H  S  N  T  Y  R  *  Q  C  Q  S  L  L  N  K  C  G  M  P  R  T  *  C  A  R  Q  I  P  V  M  D  V  T  *  Q  L  L  P  C  L  G  V  R  *  A  Q  R  R  *  M  N  R  *  S  M  C  R  T  R  T  R  P  T  L  L  N  G  S  L  T  M  S  S  L  V  C  V  I  S  H  Q  L  G  *  R  W  H  P  R  L  L  E  I  Q  P  P  F  R  R  C  L  E  G  *  V  S  S  L  L  P  C  S  G  A  R  L  S  C  I  G  T  Q  V  K  E  W  M  K  W  S  S  L  K  P  R  A  T  *  M  I  W  L  Q  N  I  N  N  T  R  M  L  Q  Q  M  M  R  K  S  M  M  M  M  R  L  L  M  I  N  T  N  P  K  N  F  S  T  F  D  I  L  L  V  C  S  I  S  A  K  *  T  C  Y  V  S  Y  C  L  L  F  I  *  T  L  C  L  V  C  *  E  M  K  C  L  L  L  V  Y  M  N  I  L  Y  Y  S  S  F   </first_frame>
            <second_frame>  H  Y  H  *  K  Y  H  S  L  S  H  F  S  L  H  L  H  L  H  L  H  L  F  F  F  L  F  S  H  S  S  H  Q  F  F  S  S  K  K  L  R  E  N  E  R  N  S  S  H  S  R  R  T  M  W  K  P  N  R  F  Q  I  L  G  S  Y  L  *  *  T  R  C  *  S  Y  R  T  L  Q  R  N  R  R  *  V  R  S  S  A  *  T  Y  Q  C  L  F  Q  *  S  F  W  W  T  L  C  S  *  G  G  F  D  G  S  R  A  W  Y  D  G  *  Y  Q  I  W  S  L  W  T  D  L  P  S  *  *  L  C  L  W  T  V  W  C  W  *  *  L  G  Q  R  S  L  Y  *  R  R  *  V  D  *  C  C  S  R  C  C  S  *  R  S  G  E  L  *  L  L  A  R :   I  P  G  L  P  L  T  W  W  R  D  W  I  W  H  G  N  T  T  D  F  Q  G  K  G  G  V  S  R  Q  D  D  A  H  I  L  C  F  P  F  S  K  G  V  *  H  C  C  R  T  I  Q  C  Y  T  V  G  A  P  I  G  G  E  C  R  *  M  Y  G  P  *  Q  R  S  S  I  *  Y  L  F  Q  N  F  E  A  H  Y  S  K  F :   W  *  L  E  P  F  D  L  C  N  H  E  W  C  Y  L  L  F  E  I  P  W  S  A  E  L  R  P  E  E  I  G  C  E  F  N  S  L  P  T  S  S  L  L  H  G  G  I  C  P  T  N  L  S  W  I  T  A  I  H  I  A  N  S  A  R  A  Y  S  T  N  V  G  C  Q  E  H  D  V  R  G  R  S  P  S  W  T  L  P  D  S  F  C  H  V  *  G  *  D  E  H  K  G  G  R  *  T  D  D  Q  C  A  E  Q  E  L  V  L  L  C  *  M  D  P  *  Q  C  Q  V  *  C  V  *  Y  P  T  N  W  A  E  D  G  I  H  V  C  W  K  F  N  L  H  S  G  D  V  *  K  G  E  *  A  V  Y  C  H  V  Q  A  Q  G  F  L  A  L  V  H  R  *  R  N  G  *  N  G  V  H  *  S  R  E  Q  H  E  *  F  G  C  R  I  S  T  I  P  G  C  Y  S  R  *  *  G  R  V  *  *  *  *  G  C  *  *  S  I  P  I  L  K  T  S  L  H  L  I  Y  C  W  F  V  Q  F  L  P  S  E  L  V  M  F  P  I  V  F  S  S  F  E  L  C  V  W  F  V  E  K  *  N  V  F  Y  W  S  I  *  I  Y  C  I  T  V  A  S  </second_frame>
            <third_frame>   I  T  T  R  N  I  T  L  F  P  I  S  P  F  I  F  I  F  I  F  I  S  S  S  S  Y  S  L  I  P  L  I  N  F  F  H  Q  K  N  *  E  K  M  R  E  I  L  H  I  Q  G  G  Q  C  G  N  Q  I  G  S  K  F  W  E  V  I  C  D  E  H  G  V  D  P  T  G  R  Y  K  G  T  A  A  E  S  D  L  Q  L  E  R  I  N  V  Y  F  N  E  A  S  G  G  R  Y  V  P  R  A  V  L  M  D  L  E  P  G  T  M  D  S  I  R  S  G  P  Y  G  Q  I  F  R  P  D  N  F  V  F  G  Q  S  G  A  G  N  N  W  A  K  G  H  Y  T  E  G  A  E  L  I  D  A  V  L  D  V  V  R  K  E  A  E  N  C  D  C  L  Q   : G  F  Q  V  C  H  S  L  G  G  G  T  G  S  G  M  G  T  L  L  I  S  K  V  R  E  E  Y  P  D  R  M  M  L  T  F  S  V  F  P  S  P  K  V  S  D  T  V  V  E  P  Y  N  A  T  L  S  V  H  Q  L  V  E  N  A  D  E  C  M  V  L  D  N  E  A  L  Y  D  I  C  F  R  T  L  K  L  T  T  P  S   : F  G  D  L  N  H  L  I  S  A  T  M  S  G  V  T  C  C  L  R  F  P  G  Q  L  N  S  D  L  R  K  L  A  V  N  L  I  P  F  P  R  L  H  F  F  M  V  G  F  A  P  L  T  S  R  G  S  Q  Q  Y  I  S  L  T  V  P  E  L  T  Q  Q  M  W  D  A  K  N  M  M  C  A  A  D  P  R  H  G  R  Y  L  T  A  S  A  M  F  R  G  K  M  S  T  K  E  V  D  E  Q  M  I  N  V  Q  N  K  N  S  S  Y  F  V  E  W  I  P  N  N  V  K  S  S  V  C  D  I  P  P  T  G  L  K  M  A  S  T  F  V  G  N  S  T  S  I  Q  E  M  F  R  R  V  S  E  Q  F  T  A  M  F  R  R  K  A  F  L  H  W  Y  T  G  E  G  M  D  E  M  E  F  T  E  A  E  S  N  M  N  D  L  V  A  E  Y  Q  Q  Y  Q  D  A  T  A  D  D  E  E  E  Y  D  D  D  E  V  A  D  D  Q  Y  Q  S  *  K  L  L  Y  I  *  Y  I  V  G  L  F  N  F  C  Q  V  N  L  L  C  F  L  L  S  S  L  H  L  N  F  V  F  G  L  L  R  N  E  M  S  F  I  G  L  Y  E  Y  T  V  L  Q  *  L  L </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="C04HBa0331L22.1" strand="-"/>
                <serials PGL_serial="20" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="97452" stop="97044"/>
                    <exon start="96101" stop="95832"/>
                    <exon start="95744" stop="95062"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1359</number_coding_nucleotides>
                  <number_encoded_amino_acids>453</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EKMREILHIQGGQCGNQIGSKFWEVICDEHGVDPTGRYKGTAAESDLQLERINVYFNEASGGRYVPRAVLMDLEPGTMDSIRSGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDAVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKVREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICFRTLKLTTPSFGDLNHLISATMSGVTCCLRFPGQLNSDLRKLAVNLIPFPRLHFFMVGFAPLTSRGSQQYISLTVPELTQQMWDAKNMMCAADPRHGRYLTASAMFRGKMSTKEVDEQMINVQNKNSSYFVEWIPNNVKSSVCDIPPTGLKMASTFVGNSTSIQEMFRRVSEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVAEYQQYQDATADDEEEYDDDEVADDQYQS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="21" PGL_strand="+" PGL_start="94919" PGL_stop="95647"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="94919" e_stop="95647"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.988"/>
        </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="0.988">
            <gDNA_exon_boundary e_start="94919" e_stop="95647" e_length="729"/>
          </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="94919" stop="95647"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E578190" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="94925" stop="95344"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E268063" 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="21" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TATTCATATAGACCAATAAAAGACATTTCATTTCTCAACAAACCAAACACAAAGTTCAAATGAAGAGAAGACAATAGGAAACATAACAAGTTCACTTGGCAGAAATTGAACAAACCAACAATATATCAAATGTAGAGAAGTTTTTAGGATTGGTATTGATCATCAGCAACCTCATCATCATCATACTCTTCCTCATCATCTGCTGTAGCATCCTGGTATTGTTGATATTCTGCAACCAAATCATTCATGTTGCTCTCGGCTTCAGTGAACTCCATTTCATCCATTCCTTCACCTGTGTACCAATGCAAGAAAGCCTTGCGCCTGAACATGGCAGTAAACTGCTCACTCACCCTTCTAAACATCTCCTGAATGGAGGTTGAATTTCCAACAAACGTGGATGCCATCTTCAGCCCAGTTGGTGGGATATCACACACACTAGACTTGACATTGTTAGGGATCCATTCAACAAAGTAGGACGAGTTCTTGTTCTGCACATTGATCATCTGTTCATCTACCTCCTTTGTGCTCATCTTACCCCTAAACATGGCAGAAGCTGTCAGGTAACGTCCATGACGGGGATCTGCCGCGCACATCATGTTCTTGGCATCCCACATTTGTTGAGTAAGCTCTGGCACTGTTAGCGATATGTATTGCTGTGATCCACGAGAGGTTAGTGGGGCAAATCCCACCATGAAGAAGTGAAGACGTGGGAAGGGAATTAAATTCACA</gDNA_template>
            <first_frame> Y  S  Y  R  P  I  K  D  I  S  F  L  N  K  P  N  T  K  F  K  *  R  E  D  N  R  K  H  N  K  F  T  W  Q  K  L  N  K  P  T  I  Y  Q  M  *  R  S  F  *  D  W  Y  *  S  S  A  T  S  S  S  S  Y  S  S  S  S  S  A  V  A  S  W  Y  C  *  Y  S  A  T  K  S  F  M  L  L  S  A  S  V  N  S  I  S  S  I  P  S  P  V  Y  Q  C  K  K  A  L  R  L  N  M  A  V  N  C  S  L  T  L  L  N  I  S  *  M  E  V  E  F  P  T  N  V  D  A  I  F  S  P  V  G  G  I  S  H  T  L  D  L  T  L  L  G  I  H  S  T  K  *  D  E  F  L  F  C  T  L  I  I  C  S  S  T  S  F  V  L  I  L  P  L  N  M  A  E  A  V  R  *  R  P  *  R  G  S  A  A  H  I  M  F  L  A  S  H  I  C  *  V  S  S  G  T  V  S  D  M  Y  C  C  D  P  R  E  V  S  G  A  N  P  T  M  K  K  *  R  R  G  K  G  I  K  F  T </first_frame>
            <second_frame>  I  H  I  D  Q  *  K  T  F  H  F  S  T  N  Q  T  Q  S  S  N  E  E  K  T  I  G  N  I  T  S  S  L  G  R  N  *  T  N  Q  Q  Y  I  K  C  R  E  V  F  R  I  G  I  D  H  Q  Q  P  H  H  H  H  T  L  P  H  H  L  L  *  H  P  G  I  V  D  I  L  Q  P  N  H  S  C  C  S  R  L  Q  *  T  P  F  H  P  F  L  H  L  C  T  N  A  R  K  P  C  A  *  T  W  Q  *  T  A  H  S  P  F  *  T  S  P  E  W  R  L  N  F  Q  Q  T  W  M  P  S  S  A  Q  L  V  G  Y  H  T  H  *  T  *  H  C  *  G  S  I  Q  Q  S  R  T  S  S  C  S  A  H  *  S  S  V  H  L  P  P  L  C  S  S  Y  P  *  T  W  Q  K  L  S  G  N  V  H  D  G  D  L  P  R  T  S  C  S  W  H  P  T  F  V  E  *  A  L  A  L  L  A  I  C  I  A  V  I  H  E  R  L  V  G  Q  I  P  P  *  R  S  E  D  V  G  R  E  L  N  S   </second_frame>
            <third_frame>   F  I  *  T  N  K  R  H  F  I  S  Q  Q  T  K  H  K  V  Q  M  K  R  R  Q  *  E  T  *  Q  V  H  L  A  E  I  E  Q  T  N  N  I  S  N  V  E  K  F  L  G  L  V  L  I  I  S  N  L  I  I  I  I  L  F  L  I  I  C  C  S  I  L  V  L  L  I  F  C  N  Q  I  I  H  V  A  L  G  F  S  E  L  H  F  I  H  S  F  T  C  V  P  M  Q  E  S  L  A  P  E  H  G  S  K  L  L  T  H  P  S  K  H  L  L  N  G  G  *  I  S  N  K  R  G  C  H  L  Q  P  S  W  W  D  I  T  H  T  R  L  D  I  V  R  D  P  F  N  K  V  G  R  V  L  V  L  H  I  D  H  L  F  I  Y  L  L  C  A  H  L  T  P  K  H  G  R  S  C  Q  V  T  S  M  T  G  I  C  R  A  H  H  V  L  G  I  P  H  L  L  S  K  L  W  H  C  *  R  Y  V  L  L  *  S  T  R  G  *  W  G  K  S  H  H  E  E  V  K  T  W  E  G  N  *  I  H  </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="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="21" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95005" stop="95298"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>291</number_coding_nucleotides>
                  <number_encoded_amino_acids>97</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QVHLAEIEQTNNISNVEKFLGLVLIISNLIIIILFLIICCSILVLLIFCNQIIHVALGFSELHFIHSFTCVPMQESLAPEHGSKLLTHPSKHLLNGG*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0331L22.1" strand="+"/>
                <serials PGL_serial="21" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="95299" stop="95559"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>258</number_coding_nucleotides>
                  <number_encoded_amino_acids>86</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>ISNKRGCHLQPSWWDITHTRLDIVRDPFNKVGRVLVLHIDHLFIYLLCAHLTPKHGRSCQVTSMTGICRAHHVLGIPHLLSKLWHC*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 329 chains have been computed
$ 
$ memory statistics:
$ 544384 bytes spliced alignments in total
$ 206 spliced alignments have been stored
$ 2642 bytes was the average size of a spliced alignment
$ 35208 bytes predicted gene locations in total
$ 21 predicted gene locations have been stored
$ 1676 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 386 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-14 17:47:13
-->
