<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-12-01 06:35:37"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" 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-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E696825" ref_strand="+" ref_description="SGN-E696825 [LH_Ea10C07](-)">
      <seq>aagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacttgcttttactactagcattgcttggggttggaagtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcgaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcagttatgtacttgatgggaaaattgacaaaggaattgctcagtttgaaaatgctgtaaaagttcaacctggttatgtcacggcatggaacaaccttggcgatgcatatgagaaaaccaaagacttaacatctgctctaaatgcatttgaagaggtacttctttttgatcctaacaacaaaatagctcgtcctaggcgcgatgcattgaaggacaaagtaacaatgtacaaaggagtatcggtgaaatctaagaagagttgatatagctagcccattagttcttttacacacttgtgctgattatctttttgaggagggattttttattctctttttccgctttctcctacacaagtggaattcgttgtcatggccatgttgaagtttcaggggttccataatagaagttgtttgaactttctgtcttaagggaaatgaaatgaacagtgtctattctcttaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="11887" stop="9117"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11587" g_stop="11403" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="185" r_length="185" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="186" r_stop="332" r_length="147" r_score="0.993"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" 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="9900" g_stop="9404" g_length="497"/>
          <reference_exon_boundary r_type="cDNA" r_start="333" r_stop="828" r_length="496" r_score="0.944"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E696825" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>829</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E696825" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11587" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9404"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGA-GCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAATGAAATGAACAGTGTCTATTCTACTTTATTTGCATAGAATC</genome_strand>
        <mrna_strand>AAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACTTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCGACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTACAAAGGAGTATCGGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGGGATTTTTTATTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTCAGGGGTTCCATAATAGAAGTTGTTTGAACTTTCTGTCTTAAG-GGAAATGAAATGAACAGTGTCTATTCT-CTTAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E738906" ref_strand="+" ref_description="SGN-E738906 [LC15BE11]">
      <seq>gcttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcaaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcagttatgtacttgatgggaaaattgacaaaggaattgctcagtttgaaaatgctgtaaaagttcaacctggttatgtcacggcatggaacaaccttggcgatgcatatgagaaaaccaaagacttaacatctgctctaaatgcatttgaagaggtacttctttttgatcctaacaacaaaatagctcgtcctaggcgcgatgcattgaaggacaaagtaacaatgtataaaggagtatcagtgaaatctaagaagagttgatatagctagcccattagttcttttacacacttgtgctgattatctttttgaggagctctttttgttctctttttccgctttctcctacacaagtggaattcgttgtcatggccatgttgaagttttggatgttccataatagaagttgtttgaactttctgtttttggtgtaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="11767" stop="9134"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11467" g_stop="11403" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="65" r_length="65" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="212" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" 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="9900" g_stop="9433" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="680" r_length="468" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E738906" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738906" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11467" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAATGAAATGAACAG</genome_strand>
        <mrna_strand>GCTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E740726" ref_strand="+" ref_description="SGN-E740726 [LC22CE08]">
      <seq>gtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcaaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcagttatgtacttgatgggaaaattgacaaaggaattgctcagtttgaaaatgctgtaaaagttcaacctggttatgtcacggcatggaacaaccttggcgatgcatatgagaaaaccaaagacttaacatctgctctaaatgcatttgaagaggtacttctttttgatcctaacaacaaaatagctcgtcctaggcgcgatgcattgaaggacaaagtaacaatgtataaaggagtatcagtgaaatctaagaagagttgatatagctagcccattagttcttttacacacttgtgctgattatctttttgaggagctctttttgttctctttttccgctttctcctacacaagtggaattcgttgtcatggccatgttgaagttttggatgttccataatagaagttgtttgaactttctgtttttggtgtaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="11767" stop="9134"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11467" g_stop="11403" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="65" r_length="65" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="212" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" 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="9900" g_stop="9433" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="680" r_length="468" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E740726" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740726" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11467" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAATGAAATGAACAG</genome_strand>
        <mrna_strand>GTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E740787" ref_strand="+" ref_description="SGN-E740787 [LC22DE08]">
      <seq>gtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcaaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcagttatgtacttgatgggaaaattgacaaaggaattgctcagtttgaaaatgctgtaaaagttcaacctggttatgtcacggcatggaacaaccttggcgatgcatatgagaaaaccaaagacttaacatctgctctaaatgcatttgaagaggtacttctttttgatcctaacaacaaaatagctcgtcctaggcgcgatgcattgaaggacaaagtaacaatgtataaaggagtatcagtgaaatctaagaagagttgatatagctagcccattagttcttttacacacttgtgctgattatctttttgaggagctctttttgttctctttttccgctttctcctacacaagtggaattcgttgtcatggccatgttgaagttttggatgttccataatagaagttgtttgaactttctgtttttggtgtaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="11767" stop="9134"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11467" g_stop="11403" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="65" r_length="65" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="212" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" 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="9900" g_stop="9433" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="680" r_length="468" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E740787" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>680</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740787" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="11467" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9433"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAATGAAATGAACAG</genome_strand>
        <mrna_strand>GTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E541487" ref_strand="-" ref_description="SGN-E541487 [TUS-62-E21]">
      <seq>cagagtaatatggtttatgaggtcggggaattatttgaactgggatcccagcttacttacctgcttttactactagcattgcttggggttggaagtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaatttgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcaaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcagttatgtacttgatgggaaaattgacaaaggaattgctcagtttgaaaatgctgtaaaagttcaacctggttatgtcacggcatggaacaaccttggcgatgcatatgagaaaaccaaagacttaacatctgctctaaatgcatttgaagaggtacttctttttgatcctaacaacaaaatagctcgtcctaggcgcgatgcattgaaggacaaagtaacaatgtataaaggagtatcagtgaaatctaagaagagttgatatagctagcccattagttcttttacacacttgtgctgattatctttttgaggagctctttttgttctctttttccgctttctcctacacaagtggaattcgttgtcatggccatgttgaagttttggatgttccataatagaagttgtttgaactttctgttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="11862" stop="9155"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="11562" g_stop="11403" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="0.969"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="307" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" 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="9900" g_stop="9455" g_length="446"/>
          <reference_exon_boundary r_type="cDNA" r_start="308" r_stop="753" r_length="446" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E541487" ref_strand="-">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>753</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541487" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="11562" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9455"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAA-TTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTT</genome_strand>
        <mrna_strand>CAGAGT-AATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGATCCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E297801" ref_strand="+" ref_description="SGN-E297801 [cLET-38-F15]">
      <seq>aacagaaagctcaaacaacttctattatggaacatccaaaacttcaacatggccatgacaacgaattccacttgtgtaggagaaagcggaaaaagagaacaaaaagagctcctcaaaaagataatcagcacaagtgtgtaaaagaactaatgggctagctatatcaactcttcttagatttcactgatactcgtttatacattgttactttgtccttcaatgcatcgcgcctaggacgagctattttgttgttaggatcaaaaagaagtacctcttcaaatgcatttagagcagatgctaaggctttggtttactcatatgcatcaccatggttgtagcatgccgggacttaaccaggttgaacttcttacagcattgacaaactgagcaattactttgtcaaatgtcccatcaagtacataactgacaccaagggcattggaaacttgggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="+" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="9156" stop="10203"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="9456" g_stop="9907" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="453" r_length="453" r_score="0.949"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="+" ref_id="SGN-E297801" ref_strand="+">
        <total_alignment_score>0.949</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E297801" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9456" e_stop="9907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAGAAAGTTCAAACAACTTCTATTATGGAACATCCAAAACTTCAACATGGCCATGACAACGAATTCCACTTGTGTAGGAGAAAGCGGAAAAAGAGAACAAAAAGAGCTCCTCAAAAAGATAATCAGCACAAGTGTGTAAAAGAACTAATGGGCTAGCTATATCAACTCTTCTTAGATTTCACTGATACTCCTTTATACATTGTTACTTTGTCCTTCAATGCATCGCGCCTAGGACGAGCTATTTTGTTGTTAGGATCAAAAAGAAGTACCTCTTCAAATGCATTTAGAGCAGATGTTAAGTCTTTGGTTTTCTCATATGCATCGCCAAGGTTGTTCCATGCCGTGACATAACCAGGTTGAACTT-TTACAGCATTTTCAAACTGAGCAATTCCTTTGTCAATTTTCCCATCAAGTACATAACTGACACCAAGGGCATTGTAAACCTGTAAA</genome_strand>
        <mrna_strand>AACAGAAAGCTCAAACAACTTCTATTATGGAACATCCAAAACTTCAACATGGCCATGACAACGAATTCCACTTGTGTAGGAGAAAGCGGAAAAAGAGAACAAAAAGAGCTCCTCAAAAAGATAATCAGCACAAGTGTGTAAAAGAACTAATGGGCTAGCTATATCAACTCTTCTTAGATTTCACTGATACTCGTTTATACATTGTTACTTTGTCCTTCAATGCATCGCGCCTAGGACGAGCTATTTTGTTGTTAGGATCAAAAAGAAGTACCTCTTCAAATGCATTTAGAGCAGATGCTAAGGCTTTGGTTTACTCATATGCATCACCATGGTTGTAGCATGCCGGGACTTAACCAGGTTGAACTTCTTACAGCATTGACAAACTGAGCAATTACTTTGTCAAATGTCCCATCAAGTACATAACTGACACCAAGGGCATTGGAAACTTGGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E692985" ref_strand="+" ref_description="SGN-E692985 [LH_Ea10C07]">
      <seq>cctttaaaagttcaatcttgatgcttcccagtttactcttccctactttgaatcataaaaatatacctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacctcccctgcaaaaatctgttcttgttccagctaaaattgcaacaaatgggagtaaaagtggttgttttcttgatttaaatggtgggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaatcgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacttgcttttactactagcattgcttggggttggaagtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacccagctgcgaccaaataccttcttcaggcagtagaaaagtgggatggagatgatcaggatcttgcccaagtttacaatgcccttggtgtcaggtatgtacttgatgggaaaattgacaaagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13742" stop="9547"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13442" g_stop="13175" g_length="268"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="267" r_length="267" r_score="0.951"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="328" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11403" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="329" r_stop="621" r_length="293" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="622" r_stop="768" r_length="147" r_score="0.993"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="9900" g_stop="9847" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="769" r_stop="822" r_length="54" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E692985" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>823</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E692985" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13442" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9847"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGA</genome_strand>
        <mrna_strand>CCTTTAAAAGTTCAATCTTGATGCTTCCCAGTTTACTCTTCCCTACTTTGAATCATAAAAATATA-CCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACCTCCCCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAATGGGAGTAAAAGTGGTTGTTTTCTTGATTTAAATGGTGGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATCGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACTTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCGACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTTGGTGTCAGGTATGTACTTGATGGGAAAATTGACAAAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E612872" ref_strand="+" ref_description="SGN-E612872 [62640]">
      <seq>taaaaattcaatcttgatgcttcccagtttactatttggtactttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacctcccctgcaaaaatctgttcttgttccagctaaaactgcaacaagttggagtaaaaatggctgttttcttgatttaaatggtgggtttggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgcaaggaaatcagaatcattcccaattttgctttcagagaaagttgatgaattgccagagaagttgctgaatggcggagatattactattagtagtggacaggttctttctctatctgctatctcatgtgggtctatcttctggttgacatctgggcaagtggcatcagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggagagttatttgaactgggaatccagcttacttacctgcttttactactagcattgcttggggttgggagtatctttgtgattcggcaagtccttgttcgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccgacagagctttttgaacctgggagctgtgatgttgaaggagaaaattctaccccagctgctaccaaaggtccttcttcaggcagtcacaaacagtgggatggcagatgatcaggatcttgcccaagtttacaatgccctgggtgtcagttatgtacttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13738" stop="9567"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13438" g_stop="13175" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="264" r_length="264" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="265" r_stop="325" r_length="61" r_score="0.967"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.853" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11403" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="326" r_stop="618" r_length="293" r_score="0.952"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.978" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11004" g_stop="10858" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="619" r_stop="773" r_length="155" r_score="0.857"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957">
            <donor d_prob="1.000" d_score="0.85"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="9900" g_stop="9867" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="774" r_stop="807" r_length="34" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E612872" ref_strand="+">
        <total_alignment_score>0.936</total_alignment_score>
        <cumulative_length_of_scored_exons>799</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E612872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13438" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11403"/>
          <exon e_start="11004" e_stop="10858"/>
          <exon e_start="9900" e_stop="9867"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCC-ACAGAGCTTTTTGAA-CTTGGAGCTGTGATGTTG-AGGAGAAAATTCTA-CCCAGCTGCAACCAAA-TACCTTCTTCAGGCAGT-AGAAA-AGTGGGATGG-AGATGATCAGGATCTTGCCCAAGTATGAACTACTCTTCAACAATTTCTGTTCCATTTATCATTTATAATTTTATATAAATGATAAAGGACCTTCTCTATAGCAATTCTCATTTTATATATAAATTTTTGATACAAATGAATGCACATTTATCCAGATGAACATGTGAAGAATCTCTTTTACCCTGGATCAAACTTTTACTTACTGCCAAAAAAAAAAAAAAGTTCAAAAGTCTGCTAGAAACTGCTGAAATTCCCAGCTCACAAATTATTTCTCTATCAAAATCTAGAAAATTTGTATAGAAAATGGACCTCAAAAGCTAGTTCATGAAGTGAAGGTTGTTCAAGATCATATAAGTAGACAATAACCCATGGTTGTGTATTTGGAGCATCGACATAACGTGGGATCCCAACATTGGGCCTGCATCACTGGGCCAAAAGGACAAAATAATCTTCTTCTTTTTGTTATGAAGATGTTGTATTAGAAGGACAGAATAACTCCTGGATAACTCCTGAGGAAATCAGGATTTTTCCTTAGAAGAAATGAGGTTGACTGGTTGTGGTAGAAATAAGCTTGATGTTCCAGTCTTATTCTTTTTATTTTTTGGTTGATGGAGCCATGAAGATTAGGGGACTGGTCATGTTGTCCAGGATTCCGTAATATGCATCACGGAACTCCAAATACTTCGGAGCTGATTGAACATCTAACTAGGAAGCTTGTATCATGGCATGGTCTGAGAATGTTAAGCAAATCTCTGTTAAATGAAATTTAACCAATACAGAAAACTATGACTTCAAAAGGATGTATTTCTAAAGAATCGTTTTAGACAGTTATAGAATTTTTACTCCCAACAGTTTGGAAGATATCTTGAGAAAAGGTTTTAGCAGCCAATACTTTTTTTGCTGTTGCGTACCAACTCTTTTCAGGTATCTGAGTTATGTATTCTGCTCCCTTCCCTTAAAATTTTGTGCATCTTTACAGGTTTACAATGCCCTTGGTGTCAGTTATGTACTTG</genome_strand>
        <mrna_strand>TAAAAATTCAATCTTGATGCTTCCCAGTTTACTATTTGGTACTTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACCTCCCCTGCAAAAATCTGTTCTTGTTCCAGCTAAAACTGCAACAAGTTGGAGTAAAAATGGCTGTTTTCTTGATTTAAATGGTGGGTTTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCAAGGAAATCAGAATCATTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGAAGTTGCTGAATGGCGGAGATATTACTATTAGTAGTGGACAGGTTCTTTCTCTATCTGCTATCTCATGTGGGTCTATCTTCTGGTTGACATCTGGGCAAGTGGCATCAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGAGAGTTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGGAGTATCTTTGTGATTCGGCAAGTCCTTGTTCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCGACAGAGCTTTTTGAACCTGGGAGCTGTGATGTTGAAGGAGAAAATTCTACCCCAGCTGCTACCAAAGGTCCTTCTTCAGGCAGTCACAAACAGTGGGATGGCAGATGATCAGGATCTTGCCCAA.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTACAATGCCCTGGGTGTCAGTTATGTACTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E701598" ref_strand="+" ref_description="SGN-E701598 [FA16BF12]">
      <seq>gctctactcctgatagagttggttgagataaactttattatcctcaagaagcaaaaaacagaagaaaattttaccaagaatgattcatcttatgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctctgcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaattgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacctgcttttactactagcattgcttggggttggaagtttctttgtgattcggcaagtccttgtccgcagagagcttgatctttctgccaaagaattgcaagagcaagttagaagtggtgatgccagtgccacagagctttttgaacttggagctgtgatgttgaggagaaaattctacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13836" stop="10626"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13536" g_stop="13175" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="362" r_length="362" r_score="0.992"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="363" r_stop="423" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11403" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="424" r_stop="716" r_length="293" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.978" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11004" g_stop="10926" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="717" r_stop="795" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E701598" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E701598" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13536" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11403"/>
          <exon e_start="11004" e_stop="10926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCCACTCCTGATAGAGTTGGTTGAGATAAACTTTATTATCCTCAAGAAGCAAAAAACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAAGTATGTGACTAAATGTCTTTTCTCGTTGTGTATAAATGCTTTGCCATTTATTTGAAACATATATAGTATGCATCTGTATGGTTTAGATCTACAAATGCAAACTTCTTTTGAAGATATATATATATATCATTGTATTCTCCTGAAGGTAGAGCAGGAGAAGAATGCTTTATAAAGAGAAAAAAAGAAAGAAGATTGTGTTTAAATCTTGACTTGGAGATATCAATATGAATTATTCTATTTGTTTCCCTCAGACAACAATAGCTGACTTTTAATCTATAATTCCATATCACATTTGTACACGTTTATATCAGTTGCAAGAACAACTTGCGCATAGATGCGAGAATGCAACTCTCATTCTCTACCTCTGAACACACTGTTTTATTTGTCACACAACACAGGAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACC</genome_strand>
        <mrna_strand>GCTCTACTCCTGATAGAGTTGGTTGAGATAAACTTTATTATCCTCAAGAAGCAAAAAACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA..............................................................................................................................................................................................................................................................................................................................................................................................................GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E689044" ref_strand="+" ref_description="SGN-E689044 [t3_tus_55_N16]">
      <seq>tcttatgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctcttcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaattgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacctgcttttactactagcattgcttggggttggaaagttctttgtgaatcggcaagtccttgtccgcagagagcttgatctttctgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13749" stop="11115"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13449" g_stop="13175" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="275" r_length="275" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="336" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11415" g_length="281"/>
          <reference_exon_boundary r_type="cDNA" r_start="337" r_stop="617" r_length="281" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E689044" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>617</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E689044" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13449" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11415"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCC</genome_strand>
        <mrna_strand>TCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAAGTTCTTTGTGAATCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E724039" ref_strand="+" ref_description="SGN-E724039 [FC22DE07]">
      <seq>atgattcatcttatgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtaaatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctctgcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaaaacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagaaaaagttgatgaattgccaaagatgttgctgaatggcggaaatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacctgcttttactactagcattgcttggggttggaagtttctttgtgattcggcaagtccttgtccgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13757" stop="11136"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13457" g_stop="13175" g_length="283"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="283" r_length="283" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <donor d_prob="0.996" d_score="0.98"/>
            <acceptor a_prob="0.991" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="284" r_stop="344" r_length="61" r_score="0.984"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.853" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11436" g_length="260"/>
          <reference_exon_boundary r_type="cDNA" r_start="345" r_stop="604" r_length="260" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E724039" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>604</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E724039" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13457" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGC</genome_strand>
        <mrna_strand>ATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAAATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAAACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAAAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAAAGATGTTGCTGAATGGCGGAAATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E418891" ref_strand="+" ref_description="SGN-E418891 [STM-28-F11]">
      <seq>aacagaagaaaattttaccaagaatgattcatcttatgcccctaaaaattcaatcttgatgcttcccagtttactatttggtactttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacctcccctgcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaacatggctgttttcttgatttaaatggtgggtttggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgcaaggaaatcagaatcattcccaattttgctttcagagaaagttgatgaattgccagagaagttgctgaatggcggagatattactattagtagtggacaggttctttctctatctgctatctcatgtgggtctatcttctggttgacatctgggcaagtggcatcagcaagtgaaggtgttagagtaaatatggtttttgaggtcggagagttatttgaactgggaatccagcttacttacctgcttttactactagcattgcttggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13780" stop="11175"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13480" g_stop="13175" g_length="306"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="306" r_length="306" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="307" r_stop="367" r_length="61" r_score="0.967"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.853" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11475" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="588" r_length="221" r_score="0.941"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E418891" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>588</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E418891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13480" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11475"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGG</genome_strand>
        <mrna_strand>AACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTATTTGGTACTTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACCTCCCCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAACATGGCTGTTTTCTTGATTTAAATGGTGGGTTTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCAAGGAAATCAGAATCATTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGAAGTTGCTGAATGGCGGAGATATTACTATTAGTAGTGGACAGGTTCTTTCTCTATCTGCTATCTCATGTGGGTCTATCTTCTGGTTGACATCTGGGCAAGTGGCATCAGCAAGTGAAGGTGTTAGAGTAAATATGGTTTTTGAGGTCGGAGAGTTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E443053" ref_strand="+" ref_description="SGN-E443053 [cSTA-36-E3]">
      <seq>aacagaagaaaattttaccaagaatgattcatcttatgcccctaaaaattcaatcttgatgcttcccagtttactatttggtactttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacctcccctgcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaacatggctgttttcttgatttaaatggtgggtttggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgcaaggaaatcagaatcattcccaattttgctttcagagaaagttgatgaattgccagagaagttgctgaatggcggagatattactattagtagtggacaggttctttctctatctgctatctcatgtgggtctatcttctggttgacatctgggcaagtggcatcagcaagtgaaggtgttagagtaaatatggtttttgaggtcggagagttatttgaactgggaatccagcttacttacctgcttttactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13780" stop="11189"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13480" g_stop="13175" g_length="306"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="306" r_length="306" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="307" r_stop="367" r_length="61" r_score="0.967"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.853" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11489" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="368" r_stop="574" r_length="207" r_score="0.937"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E443053" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>574</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E443053" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13480" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11489"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTAC</genome_strand>
        <mrna_strand>AACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTATTTGGTACTTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACCTCCCCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAACATGGCTGTTTTCTTGATTTAAATGGTGGGTTTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCAAGGAAATCAGAATCATTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGAAGTTGCTGAATGGCGGAGATATTACTATTAGTAGTGGACAGGTTCTTTCTCTATCTGCTATCTCATGTGGGTCTATCTTCTGGTTGACATCTGGGCAAGTGGCATCAGCAAGTGAAGGTGTTAGAGTAAATATGGTTTTTGAGGTCGGAGAGTTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E257683" ref_strand="+" ref_description="SGN-E257683 [cLEG-39-E12]">
      <seq>cttatgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctcttcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaattgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacctgcttttactac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13748" stop="11189"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13448" g_stop="13175" g_length="274"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="274" r_length="274" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="275" r_stop="335" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11489" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="336" r_stop="542" r_length="207" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E257683" ref_strand="+">
        <total_alignment_score>1.000</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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257683" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13448" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11489"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTAC</genome_strand>
        <mrna_strand>CTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E551214" ref_strand="+" ref_description="SGN-E551214 [TUS-55-N16]">
      <seq>caggatcttatgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctcttcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaattgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctttctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtgaaggtgtcagagtaaatatggtttatgaggtcggggaattatttgaactgggaatccagcttacttacctgcttttacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13750" stop="11190"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13454" g_stop="13175" g_length="280"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="280" r_length="280" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="341" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11490" g_length="206"/>
          <reference_exon_boundary r_type="cDNA" r_start="342" r_stop="547" r_length="206" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E551214" ref_strand="+">
        <total_alignment_score>0.993</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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E551214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13454" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11490"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTA</genome_strand>
        <mrna_strand>CAGGATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E298394" ref_strand="+" ref_description="SGN-E298394 [cLET-41-F6]">
      <seq>aaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaagtataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctctgcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggctgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgccaggaaatcagaatcactcccaattttgctttcagagaaagttgatgaattgccagagatgttgctgaatggcggagatattaccattagtagtggggagattctttctctatcagctgtctcatgtggatctatcttctggttgacatctgggcaagtggcattagcaagtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13737" stop="11269"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13437" g_stop="13175" g_length="263"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="263" r_length="263" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <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="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="264" r_stop="324" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.853" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11569" g_length="127"/>
          <reference_exon_boundary r_type="cDNA" r_start="325" r_stop="451" r_length="127" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E298394" ref_strand="+">
        <total_alignment_score>0.991</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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298394" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13437" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11569"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGA</genome_strand>
        <mrna_strand>AAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAGTATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTGCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGCTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTGTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E471538" ref_strand="+" ref_description="SGN-E471538 [cSTB-24-I8]">
      <seq>taaaaattcaatcttgatgcttcccagtttactatttggtactttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacctcccctgcaaaaatctgttcttgttccagctaaaactgcaacaagttggagtaaacatggctgttttcttgatttaaatggtgggtgtggttcaaaatcagcttcttatcactttccaagaagacccattaagggaaattcaattcagctgaagatttatgcaaggaaatcagaatcattcccaattttgctttcagagaaagttgatgaattgccagagaagttgctgaatggcggagatattactataagtagtggggaggttctttctctatcagctttctcatgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13738" stop="11316"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13438" g_stop="13175" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="264" r_length="264" r_score="0.955"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.991" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="13006" g_stop="12946" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="265" r_stop="325" r_length="61" r_score="0.967"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250">
            <donor d_prob="0.999" d_score="0.96"/>
            <acceptor a_prob="0.853" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="11695" g_stop="11616" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="326" r_stop="405" r_length="80" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E471538" ref_strand="+">
        <total_alignment_score>0.956</total_alignment_score>
        <cumulative_length_of_scored_exons>405</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E471538" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13438" e_stop="13175"/>
          <exon e_start="13006" e_stop="12946"/>
          <exon e_start="11695" e_stop="11616"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAGGTAATTCCCCTAATTTTTGGGTTGCTGTGTTTTCTTGATATGCTTGTAGATGATTATTTGAGTGACTGCTGTCGATTACTCTGTTGTTGAGAGCTCTTTAGTGATGCGTTTGTTGATTTGTTTTATCTCTTTTTGGGTATTCTTAAGTTTTGTCTATATTGTTTACAGCTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATGGTACTTCTTTTTCTTCTTTAATGATTAACTTTGAAAAATAACTCTAATTGATGCTACATGGGCAAAATTTTCCTGATGGCGGTCAGTCCTGAACGAATTCCCTCTCGTAGCTAGGGCCTTGCTAGTCCTTGTAAAACAAAAATAGGGCAGCCTGGTGCACTAAGCTCCCATGATGCGTGGGGTGTGGGGAAGGGATGGACCACAAGGGTCTATTGTCCTTCATATCTATAAGAGACTATTTTCACAGGTCGAAATCCGTGACCTTGTTGTTACATAGAAGCAACTTTACTAGTTCTCTCTATCCGTAATCCATATTATAAAATTATCTAATGTAACCTTTACAGGTTTCAAGGATTAATTCATTTAACTAGACAATTTTTATCTTTGATGGGATGTTTTCTTTATTTAACTAGACAACTGGTATTTTACTTATTGATATCATCAACTAGTAGTGTTTTCTTCTCTTATTGATTCTATAATACTCAAGTCAAACTAAAATCTTCATGTCTAGTGAAAATATGACACATTGGGTAGGATGGATCATCTTATTTGAAGTGCTAGTTCTAGATCCCTGCATTGGTATAGTCGAGACTGAGAAATGTCGATTTTCGTACACATACTTTTTTTTTTCTTTAATTGGAATGTTTATATATTGTTTTTAGTTTTGTGGCAGTCTATCAAATGTTTGGAAACAATTATCATTTTCCTATAGATTTACCAAAAAGAAAAAAAAATATCATCTTCCCTTAGAAAGGTATGAAGACCTACTTAACTCCTAGCTTGAGAAAGATCAAGAGATATTTGAGATTGGTAGGAGGGATGATTTAGCTTCTAATTATACTTATGATTACATTTTTAACTCCACTAATGCTTTTCGATTGATCTGTTGGTTTTTGATAAAAAAAACACTGAAAAAGCACCCTCATCCTCGGAATGGAAAGCAAACTGAAATTTCAATCAACTTCTTATGACCTGTGACACAAATCCTTACCTCGGACTTGTAAATATATTCACGACTGTGTATAATGTTGAGATTAATTTCCAAAAGGACATCACCTTGTTCTTCTATGAACAAGTAATAAATCATTCCAACAGAAGTTTGGAACTTCTTGTTTTGTATTAAATCCTCTATACGCATACAGAGGAAGATTGCCTAATATAATTGCTATGAACCATAAATATGATAATAATGCTTTGTTGCACAGATTTTGCATGAACTAAAAGGTCCCGTCATTGGCTTCCCATTGCAGAATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGT</genome_strand>
        <mrna_strand>TAAAAATTCAATCTTGATGCTTCCCAGTTTACTATTTGGTACTTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACCTCCCCTGCAAAAATCTGTTCTTGTTCCAGCTAAAACTGCAACAAGTTGGAGTAAACATGGCTGTTTTCTTGATTTAAATGGTGGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG........................................................................................................................................................................CTGAAGATTTATGCAAGGAAATCAGAATCATTCCCAATTTTGCTTTCAGAGAAAGTTGATG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTGCCAGAGAAGTTGCTGAATGGCGGAGATATTACTATAAGTAGTGGGGAGGTTCTTTCTCTATCAGCTTTCTCATGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E264309" ref_strand="+" ref_description="SGN-E264309 [cLEG-70-B19]">
      <seq>atgcccctaaaaattcaatcttgatgcttcccagtttactcttcagtaatttgaatcataaaaatataccctttttgtagatagaagaaaagaaatgctaatgatacagtccaccatttcacttcctcttcaaaaatctgttcttgttccagctaaaattgcaacaagtgggagtaaaaatggttgttttcttgatttaaatggtcggtgtggttcaaaatcagcttcttatcactttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="13745" stop="12907"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="13445" g_stop="13207" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E264309" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>239</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E264309" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="13445" e_stop="13207"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTC</genome_strand>
        <mrna_strand>ATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E257351" ref_strand="+" ref_description="SGN-E257351 [cLEG-45-G13]">
      <seq>tggtccttttacaccttaaaacactatgtggcacagtacaattgtgatccgagatctgatttgagcctgaggtgcatactgggcgacgaggttgatggtgttcctggaatccagcatgttgttcctggttttggtcgaaagactgctttgaagcttttgaaaaagcacggtacactggagaatttacttaatgctgcttcagtaagatcagtgggcaggcagtatgcacaagatgcccttatcaagtacgctgattatctgcgcagaaattatgaagttctctctctgaagagggatgtcagtatccatattgaggagcaatggcttaatgagagggatgcgcgtaatgactcacttgttttatccaacttcgtcacttcgctggaagacagtaggaatcttaatttggaaaagagatcgcattccattggttgaaattgccagaagaaagcattttttgtgtaagttataatgtaagctctacaacctgaagaacaaagatcttgatgcttcagcagaagtatcaaactaaaccaatagacgattaccgaacttagccagaagatttgatcagatgaaccggactgaatcagaatatccaaattcacaatagaagcatacagtagaaaacttagctattattcctcttggacgaatcactaaggaagagacttctgaggtctaaaatgtacagtaagtttgagtttcttttagtagtgcctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="30078" stop="26604"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29778" g_stop="29709" 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="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28468" g_stop="28246" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="293" r_length="223" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28245" i_stop="28133" i_length="113">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.787" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="28132" g_stop="27968" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="458" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27967" i_stop="27246" i_length="722">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="27245" g_stop="27095" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="609" r_length="151" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="27094" i_stop="27019" i_length="76">
            <donor d_prob="0.998" 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="27018" g_stop="26904" g_length="115"/>
          <reference_exon_boundary r_type="cDNA" r_start="610" r_stop="724" r_length="115" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E257351" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>724</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257351" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29778" e_stop="29709"/>
          <exon e_start="28468" e_stop="28246"/>
          <exon e_start="28132" e_stop="27968"/>
          <exon e_start="27245" e_stop="27095"/>
          <exon e_start="27018" e_stop="26904"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAGGTAGCATTTTCATTTTTTCTTTCTTCTCTGTAACAGCAAAAGAGTTATTCAGTATCCAAGCCCCTTTCATAGCTTCCTACTTCTAACTATTGTAAATGGAATGACACTAAAAGGGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTTGTGAGTTTCTTCTTTACTTCTTTATTTGTTCCATTTTTATTCTTCAGCTTTGACGGAGTGGCATATTAAGTATCTTCTGGATAGCAAAGACGGTAAAATGTCAAAAGGTATAGTGAAAGGTCTTTTAGCTTGTCTACATTTTACGGTGACCATATATCTAGCCTATCTTACCAAAAGAAGACATTACCTCTAGCCCATATTTCAATATATCACACATCAATCCAGAGTTGATTTTGCTTTGGGTTGAAATGACAATATGAGCAACAAAAGATTCTGCTCCAGACCCTTTTTTTTTTGAAGTGGCTAGTGTTTTTGATGTTAAAATCAGAGCACTAAGGAGGTGCTGTAGCTACATACAAAAAGATTACAAGTGAATATTAAAAAAGTTAACAGGATGTCTCGAGTATCATTCTAATCTAACACCAACAAGTTATCAACATAATACAATCTTGTTTCCAGCTTTAGGTATGTTTTTCTACAAATTTAGTATTTATGTTATAATTTCTTTTACATTCTGAATGATGTCGGAGAGCTTGTATGATGTTGAGTGAATTAAAATAAATTAACTAGAAAGGCCTAATTACAGTTACCACATTGAAAAGATGATTTTGTCATGAAGAAGAAAACAATGTAAAAACATGGACACCCTGCAAAGGAACAGAAAATGATATGAATTTCATGTTATTCAAATTCTCAAGTGCTTGATGTTCTGTTTTATGCAGTGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCTTCAGCAGAAGTATCAAACTAAACCAATAGACGATTACCGAACTTAGCCAGAAGATTTGATCAGATGAACCGGACTGAATCAGAATATCCAAATTCACAGTGAGTATAGACTAATACTCTCTATTTCATGTCTATTTGTTTCAATAACACTAATTCATTTTTCTTCATGTATCAGATAGAAGCATACAGTAGAAAACTTAGCTATTATTCCTCTTGGACGAATCACTAAGGAAGAGACTTCTGAGGTCTAAAATGTACAGTAAGTTTGAGTTTCTTTTAGTAGTGCCTCT</genome_strand>
        <mrna_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAG.................................................................................................................GGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCTTCAGCAGAAGTATCAAACTAAACCAATAGACGATTACCGAACTTAGCCAGAAGATTTGATCAGATGAACCGGACTGAATCAGAATATCCAAATTCACA............................................................................ATAGAAGCATACAGTAGAAAACTTAGCTATTATTCCTCTTGGACGAATCACTAAGGAAGAGACTTCTGAGGTCTAAAATGTACAGTAAGTTTGAGTTTCTTTTAGTAGTGCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E263681" ref_strand="+" ref_description="SGN-E263681 [cLEG-60-A20]">
      <seq>tggtccttttacaccttaaaacactatgtggcacagtacaattgtgatccgagatctgatttgagcctgaggtgcatactgggcgacgaggttgatggtgttcctggaatccagcatgttgttcctggttttggtcgaaagactgctttgaagcttttgaaaaagcacggtacactggagaatttacttaatgctgcttcagtaagatcagtgggcaggcagtatgcacaagatgcccttatcaagtacgctgattatctgcgcagaaattatgaagttctctctctgaagagggatgtcagtatccatattgaggagcaatggcttaatgagagggatgcgcgtaatgactcacttgttttatccaacttcgtcacttcgctggaagacagtaggaatcttaatttggaaaagagatcgcattccattggttgaaattgccagaagaaagcattttttgtgtaagttataatgtaagctctacaacctgaagaacaaagatcttgatgcttcagcagaagtatcaaactagaccaatagacgattaccgaacttagccagaagatttgatcagatgaaccggactgaatcagaatatccaaattcacaatagaagcatacagtagaaaacttagctattattcctcttggacgaatcactaaggaagagacttctgaggtctaacatgtacagtaagtttgagtttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="30078" stop="26620"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29778" g_stop="29709" 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="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28468" g_stop="28246" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="293" r_length="223" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28245" i_stop="28133" i_length="113">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.787" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="28132" g_stop="27968" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="458" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27967" i_stop="27246" i_length="722">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="27245" g_stop="27095" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="609" r_length="151" r_score="0.993"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="27094" i_stop="27019" i_length="76">
            <donor d_prob="0.998" 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="27018" g_stop="26920" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="610" r_stop="708" r_length="99" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E263681" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>708</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E263681" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29778" e_stop="29709"/>
          <exon e_start="28468" e_stop="28246"/>
          <exon e_start="28132" e_stop="27968"/>
          <exon e_start="27245" e_stop="27095"/>
          <exon e_start="27018" e_stop="26920"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAGGTAGCATTTTCATTTTTTCTTTCTTCTCTGTAACAGCAAAAGAGTTATTCAGTATCCAAGCCCCTTTCATAGCTTCCTACTTCTAACTATTGTAAATGGAATGACACTAAAAGGGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTTGTGAGTTTCTTCTTTACTTCTTTATTTGTTCCATTTTTATTCTTCAGCTTTGACGGAGTGGCATATTAAGTATCTTCTGGATAGCAAAGACGGTAAAATGTCAAAAGGTATAGTGAAAGGTCTTTTAGCTTGTCTACATTTTACGGTGACCATATATCTAGCCTATCTTACCAAAAGAAGACATTACCTCTAGCCCATATTTCAATATATCACACATCAATCCAGAGTTGATTTTGCTTTGGGTTGAAATGACAATATGAGCAACAAAAGATTCTGCTCCAGACCCTTTTTTTTTTGAAGTGGCTAGTGTTTTTGATGTTAAAATCAGAGCACTAAGGAGGTGCTGTAGCTACATACAAAAAGATTACAAGTGAATATTAAAAAAGTTAACAGGATGTCTCGAGTATCATTCTAATCTAACACCAACAAGTTATCAACATAATACAATCTTGTTTCCAGCTTTAGGTATGTTTTTCTACAAATTTAGTATTTATGTTATAATTTCTTTTACATTCTGAATGATGTCGGAGAGCTTGTATGATGTTGAGTGAATTAAAATAAATTAACTAGAAAGGCCTAATTACAGTTACCACATTGAAAAGATGATTTTGTCATGAAGAAGAAAACAATGTAAAAACATGGACACCCTGCAAAGGAACAGAAAATGATATGAATTTCATGTTATTCAAATTCTCAAGTGCTTGATGTTCTGTTTTATGCAGTGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCTTCAGCAGAAGTATCAAACTAAACCAATAGACGATTACCGAACTTAGCCAGAAGATTTGATCAGATGAACCGGACTGAATCAGAATATCCAAATTCACAGTGAGTATAGACTAATACTCTCTATTTCATGTCTATTTGTTTCAATAACACTAATTCATTTTTCTTCATGTATCAGATAGAAGCATACAGTAGAAAACTTAGCTATTATTCCTCTTGGACGAATCACTAAGGAAGAGACTTCTGAGGTCTAAAATGTACAGTAAGTTTGAGTTTC</genome_strand>
        <mrna_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAG.................................................................................................................GGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCTTCAGCAGAAGTATCAAACTAGACCAATAGACGATTACCGAACTTAGCCAGAAGATTTGATCAGATGAACCGGACTGAATCAGAATATCCAAATTCACA............................................................................ATAGAAGCATACAGTAGAAAACTTAGCTATTATTCCTCTTGGACGAATCACTAAGGAAGAGACTTCTGAGGTCTAACATGTACAGTAAGTTTGAGTTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E259606" ref_strand="+" ref_description="SGN-E259606 [cLEG-42-A15]">
      <seq>tggtccttttacaccttaaaacactatgtggcacagtacaattgtgatccgagatctgatttgagcctgaggtgcatactgggcgacgaggttgatggtgttcctggaatccagcatgttgttcctggttttggtcgaaagactgctttgaagcttttgaaaaagcacggtacactggagaatttacttaatgctgcttcagtaagatcagtgggcaggcagtatgcacaagatgcccttatcaagtacgctgattatctgcgcagaaattatgaagttctctctctgaagagggatgtcagtatccatattgaggagcaatggcttaatgagagggatgcgcgtaatgactcacttgttttatccaacttcgtcacttcgctggaagacagtaggaatcttaatttggaaaagagatcgcattccattggttgaaattgccagaagaaagcattttttgtgtaagttataatgtaagctctacaacctgaagaacaaagatcttgatgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="30078" stop="26893"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29778" g_stop="29709" 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="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="1.00"/>
            <acceptor a_prob="0.993" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28468" g_stop="28246" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="71" r_stop="293" r_length="223" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28245" i_stop="28133" i_length="113">
            <donor d_prob="0.980" d_score="1.00"/>
            <acceptor a_prob="0.787" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="28132" g_stop="27968" g_length="165"/>
          <reference_exon_boundary r_type="cDNA" r_start="294" r_stop="458" r_length="165" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="27967" i_stop="27246" i_length="722">
            <donor d_prob="0.984" d_score="1.00"/>
            <acceptor a_prob="0.943" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="27245" g_stop="27193" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="511" r_length="53" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E259606" 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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E259606" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29778" e_stop="29709"/>
          <exon e_start="28468" e_stop="28246"/>
          <exon e_start="28132" e_stop="27968"/>
          <exon e_start="27245" e_stop="27193"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAGGTAGCATTTTCATTTTTTCTTTCTTCTCTGTAACAGCAAAAGAGTTATTCAGTATCCAAGCCCCTTTCATAGCTTCCTACTTCTAACTATTGTAAATGGAATGACACTAAAAGGGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTTGTGAGTTTCTTCTTTACTTCTTTATTTGTTCCATTTTTATTCTTCAGCTTTGACGGAGTGGCATATTAAGTATCTTCTGGATAGCAAAGACGGTAAAATGTCAAAAGGTATAGTGAAAGGTCTTTTAGCTTGTCTACATTTTACGGTGACCATATATCTAGCCTATCTTACCAAAAGAAGACATTACCTCTAGCCCATATTTCAATATATCACACATCAATCCAGAGTTGATTTTGCTTTGGGTTGAAATGACAATATGAGCAACAAAAGATTCTGCTCCAGACCCTTTTTTTTTTGAAGTGGCTAGTGTTTTTGATGTTAAAATCAGAGCACTAAGGAGGTGCTGTAGCTACATACAAAAAGATTACAAGTGAATATTAAAAAAGTTAACAGGATGTCTCGAGTATCATTCTAATCTAACACCAACAAGTTATCAACATAATACAATCTTGTTTCCAGCTTTAGGTATGTTTTTCTACAAATTTAGTATTTATGTTATAATTTCTTTTACATTCTGAATGATGTCGGAGAGCTTGTATGATGTTGAGTGAATTAAAATAAATTAACTAGAAAGGCCTAATTACAGTTACCACATTGAAAAGATGATTTTGTCATGAAGAAGAAAACAATGTAAAAACATGGACACCCTGCAAAGGAACAGAAAATGATATGAATTTCATGTTATTCAAATTCTCAAGTGCTTGATGTTCTGTTTTATGCAGTGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCT</genome_strand>
        <mrna_strand>TGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAG.................................................................................................................GGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E259488" ref_strand="+" ref_description="SGN-E259488 [cLEG-42-A14]">
      <seq>attgtgatccgagatctgatttgagccctgaggtgcatactgggcgaacaggttgatggtgttcctggaatccagcatgttgttcctggttttggtcgaaagactgctttgaagcttttgaaaaagcaccggtccactggagaatttacttaatgcctgcttcagtaagatcagtgggcaggcagtatgcaccaagatgccccttatcaagtacccctgattatctgcgcagaaattatgaagttctctctctgaagagggatgtcagtatccatattgaggagcaatggcttaatgag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="30038" stop="27793"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29738" g_stop="29709" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="31" r_length="31" r_score="0.933"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="0.00"/>
            <acceptor a_prob="0.993" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="28468" g_stop="28246" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="259" r_length="228" r_score="0.937"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="28245" i_stop="28133" i_length="113">
            <donor d_prob="0.980" d_score="0.94"/>
            <acceptor a_prob="0.787" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="28132" g_stop="28093" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="260" r_stop="299" r_length="40" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E259488" ref_strand="+">
        <total_alignment_score>0.937</total_alignment_score>
        <cumulative_length_of_scored_exons>293</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E259488" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29738" e_stop="29709"/>
          <exon e_start="28468" e_stop="28246"/>
          <exon e_start="28132" e_stop="28093"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTGTGATCCGAGATCTGATTTGAG-CCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCA-CGGTACACTGGAGAATTTACTTAATG-CTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCA-CAAGATG-CCCTTATCAAGTA-CGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAGGTAGCATTTTCATTTTTTCTTTCTTCTCTGTAACAGCAAAAGAGTTATTCAGTATCCAAGCCCCTTTCATAGCTTCCTACTTCTAACTATTGTAAATGGAATGACACTAAAAGGGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAG</genome_strand>
        <mrna_strand>ATTGTGATCCGAGATCTGATTTGAGCCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGGGCGAACAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACCGGTCCACTGGAGAATTTACTTAATGCCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACCAAGATGCCCCTTATCAAGTACCCCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAG.................................................................................................................GGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E437405" ref_strand="+" ref_description="SGN-E437405 [cSTA-3-N3]">
      <seq>tttgttacaaaggaagcattccttttttgctttcttttgctcattggatttcccttttcttctctcaagttagcctcactgatcctgctattgctgttattgatggagaaagaggtaatgagtatagaagacagttgttaccttcctataaagcaagtaggaggaaatactggcatcagttgcaaggtgcagtaaaatctccaaggagtacgattgaaaggtcacataggctcatcttggatgttcttcagaactgcaatgttcctgtagttaagattgaatcacatgaagcagatgatgttatagccacacttgtagaacaggttctacaaagggggcaccgagtcgtcgttgcctctcctgacaaagacttcaaacagctgatatctgatgatgttcaaattgtcatgccagtaccagagttcaatagatggtccttttacaccctaaaacactatgtggcacagtacaattgtgatccaaggtctgatttgagcctgaggtgcatactgngtgatgaggttgatggtgttcctggaatccagcatgttgttcctggttttggtcgaaagactgctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="31716" stop="28091"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="31416" g_stop="31322" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="0.937"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="31321" i_stop="31020" i_length="302">
            <donor d_prob="0.889" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="31019" g_stop="30849" g_length="171"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="266" r_length="171" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="30848" i_stop="29944" i_length="905">
            <donor d_prob="0.992" d_score="0.98"/>
            <acceptor a_prob="0.200" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29943" g_stop="29709" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="501" r_length="235" r_score="0.970"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="0.96"/>
            <acceptor a_prob="0.993" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="28468" g_stop="28391" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="579" r_length="78" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E437405" ref_strand="+">
        <total_alignment_score>0.967</total_alignment_score>
        <cumulative_length_of_scored_exons>579</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E437405" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="31416" e_stop="31322"/>
          <exon e_start="31019" e_stop="30849"/>
          <exon e_start="29943" e_stop="29709"/>
          <exon e_start="28468" e_stop="28391"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTTACAAAGGAAGTATTCCTTCTTTGCAATCTTTTGCTCATTGGATTTCCATTTTCTTCTCTCAAGTTAGCCTCACTGATCCTGTTATTGCTGTAAGCTTCCTCTCGGTGTATAACTCTGTTTGTTGAGCTAGGAGATGAGAAAGAAAAGAGTTGGAGTGTTAGGGGTGGTATATACTCTATAAATATAATCTTTACTTATTGATTCACCTTATTGTACCTGAAAGTATTTGTACATGTTTATAATAGTAGTTTTTGTCAATATGAATACAAAGTTTAAGAAAAAGCTATTGAGTTCGTCTGAATGAGCTAGAACCTTGCTTGGAAGGTGTAGATGGTAGTATATGAAAGGATCATGAACTACATATTGTTTGAACTGGGTGATTGTTTTACAGGTTATTGATGGAGAAAGAGGTAATGAGTATAGAAGGCAGTTGTTACCTTCCTATAAAGCAAGTAGGAGGAAATACTGGCATCAGTTGCAAGGTGCAGTAAAATCTCCACGGAGTACGATTGAAAGGTCACATAGGCTCATCTTGGATGTTCTTCAGAGCTGCAATGTTCCTGTGAGTGAACAATTTCTTCATCAATACTTGTAGTTTTGATTTATTGATGCATCCTTGGAATCTGGTTTCTTCAGTAGTCTGAAGTTGACGGTTATCTTTACTACCGATTTGAGGAAGGTCTTCTATTTTTTTGTGCATCGACGGTGTATTTACTGATATTAACTACAATCTTATTTCTAACTGATAAAATACTAAGAAGCATGAACCATGATATAGATTTAATTTTCCTACTTGTCAGAAAGAAATTTGCTTCCGAAATGTGAGTTGCTTATGGCAAGCAACAACTCTGGAGATTCATATATAGCAAAAGTTGAATGGAGAAAGAACGAATCTTGGACCAAACAAATAAATCCATGAACTTTGAATGGAACAATCAATACCAGCTAGTTTTCTCTCAAGAGAACAGTTTCTGAGGCCTATTAATGTCATTTCAGCTTTAAGTTTGGGTGAGAACACATACAGACACACAACCTTATTAACAACGAGAAATAGTAAATTACAACCAGTGGCCTACATATCCCAGTACTCCCCTTATGATATTTTTGACTTAATATTTTCCTGCTACCTTGTGCATCTCCTGCCTCAGGTTTGACTATGGTGGTTGTGTTTATAGTCTATGTTGCTCAGACTCTTTAGCAATGTTGCCAGGTTCATGTCGGATCTTCCAAAAACAGTGTATTTTGGAGGATTCAGCACAGGTGTGGCATCAGTTTTGGAGAGTCCGAGCAACTATAACTGCAGACTTAAATATATTTTTGGGCTGGATATTCTTGCTCAGAATATTATTTTTTGCACTAAACAGTCTTGTTTGAACGCTTTCTTCTATGTGTTGCTCATATATTTTTTTGCGTTACGCAATCTTCTGAGCATAACGAGAAGGGCTTTTGACCAACTGTAGTATGCAGGTAGTTAAGATTGAATCACATGAAGCAGATGATGTTATAGCCACACTTGTAGAACAGGTTCTACAAAGGGGGCACCGAGTTGTGGTTGCCTCTCCTGATAAAGACTTCAAACAACTGATATCTGATGATGTTCAAATTGTCATGCCAGTACCAGAGTTCAATAGATGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTT</genome_strand>
        <mrna_strand>TTTGTTACAAAGGAAGCATTCCTTTTTTGCTTTCTTTTGCTCATTGGATTTCCCTTTTCTTCTCTCAAGTTAGCCTCACTGATCCTGCTATTGCT..............................................................................................................................................................................................................................................................................................................GTTATTGATGGAGAAAGAGGTAATGAGTATAGAAGACAGTTGTTACCTTCCTATAAAGCAAGTAGGAGGAAATACTGGCATCAGTTGCAAGGTGCAGTAAAATCTCCAAGGAGTACGATTGAAAGGTCACATAGGCTCATCTTGGATGTTCTTCAGAACTGCAATGTTCCT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGTTAAGATTGAATCACATGAAGCAGATGATGTTATAGCCACACTTGTAGAACAGGTTCTACAAAGGGGGCACCGAGTCGTCGTTGCCTCTCCTGACAAAGACTTCAAACAGCTGATATCTGATGATGTTCAAATTGTCATGCCAGTACCAGAGTTCAATAGATGGTCCTTTTACACCCTAAAACACTATGTGGCACAGTACAATTGTGATCCAAGGTCTGATTTGAGCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGNGTGATGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E415651" ref_strand="+" ref_description="SGN-E415651 [STM-21-P9]">
      <seq>tttgttacaaaggaagcattccttctttgcaatcttttgctcattggatttcccttttcttctctcaagttagcctcactgatcctgttattgctgttattgatggagaaagaggtaatgagtatagaagacagttgttaccttcctataaagcaagtaggaggaaatactggcatcagttgcaaggtgcagtaaaatctccaaggagtacgattgaaaggtcacataggctcatcttggatgttcttcagaactgcaatgttcctgtagttaagattgaatcacatgaagcagatgatgttatagccacacttgtagaacaggttctacaaagggggcaccgagtcgtcgttgcctctcctgacaaagacttcaaacagctgatatctgatgatgttcaaattgtcatgccagtaccagagttcaatagatggtccttttacaccctaaaacactatgtggcacagtacaattgtgatccaaggtctgatttgagcctgaggtgcatactgggtgatgaggttgatggtgttcctggaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="31716" stop="28129"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="31416" g_stop="31322" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="31321" i_stop="31020" i_length="302">
            <donor d_prob="0.889" d_score="0.98"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="31019" g_stop="30849" g_length="171"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="266" r_length="171" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="30848" i_stop="29944" i_length="905">
            <donor d_prob="0.992" d_score="0.98"/>
            <acceptor a_prob="0.200" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29943" g_stop="29709" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="501" r_length="235" r_score="0.970"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="29708" i_stop="28469" i_length="1240">
            <donor d_prob="0.976" d_score="0.96"/>
            <acceptor a_prob="0.993" a_score="0.95"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="28468" g_stop="28429" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="502" r_stop="541" r_length="40" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E415651" ref_strand="+">
        <total_alignment_score>0.976</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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E415651" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="31416" e_stop="31322"/>
          <exon e_start="31019" e_stop="30849"/>
          <exon e_start="29943" e_stop="29709"/>
          <exon e_start="28468" e_stop="28429"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGTTACAAAGGAAGTATTCCTTCTTTGCAATCTTTTGCTCATTGGATTTCCATTTTCTTCTCTCAAGTTAGCCTCACTGATCCTGTTATTGCTGTAAGCTTCCTCTCGGTGTATAACTCTGTTTGTTGAGCTAGGAGATGAGAAAGAAAAGAGTTGGAGTGTTAGGGGTGGTATATACTCTATAAATATAATCTTTACTTATTGATTCACCTTATTGTACCTGAAAGTATTTGTACATGTTTATAATAGTAGTTTTTGTCAATATGAATACAAAGTTTAAGAAAAAGCTATTGAGTTCGTCTGAATGAGCTAGAACCTTGCTTGGAAGGTGTAGATGGTAGTATATGAAAGGATCATGAACTACATATTGTTTGAACTGGGTGATTGTTTTACAGGTTATTGATGGAGAAAGAGGTAATGAGTATAGAAGGCAGTTGTTACCTTCCTATAAAGCAAGTAGGAGGAAATACTGGCATCAGTTGCAAGGTGCAGTAAAATCTCCACGGAGTACGATTGAAAGGTCACATAGGCTCATCTTGGATGTTCTTCAGAGCTGCAATGTTCCTGTGAGTGAACAATTTCTTCATCAATACTTGTAGTTTTGATTTATTGATGCATCCTTGGAATCTGGTTTCTTCAGTAGTCTGAAGTTGACGGTTATCTTTACTACCGATTTGAGGAAGGTCTTCTATTTTTTTGTGCATCGACGGTGTATTTACTGATATTAACTACAATCTTATTTCTAACTGATAAAATACTAAGAAGCATGAACCATGATATAGATTTAATTTTCCTACTTGTCAGAAAGAAATTTGCTTCCGAAATGTGAGTTGCTTATGGCAAGCAACAACTCTGGAGATTCATATATAGCAAAAGTTGAATGGAGAAAGAACGAATCTTGGACCAAACAAATAAATCCATGAACTTTGAATGGAACAATCAATACCAGCTAGTTTTCTCTCAAGAGAACAGTTTCTGAGGCCTATTAATGTCATTTCAGCTTTAAGTTTGGGTGAGAACACATACAGACACACAACCTTATTAACAACGAGAAATAGTAAATTACAACCAGTGGCCTACATATCCCAGTACTCCCCTTATGATATTTTTGACTTAATATTTTCCTGCTACCTTGTGCATCTCCTGCCTCAGGTTTGACTATGGTGGTTGTGTTTATAGTCTATGTTGCTCAGACTCTTTAGCAATGTTGCCAGGTTCATGTCGGATCTTCCAAAAACAGTGTATTTTGGAGGATTCAGCACAGGTGTGGCATCAGTTTTGGAGAGTCCGAGCAACTATAACTGCAGACTTAAATATATTTTTGGGCTGGATATTCTTGCTCAGAATATTATTTTTTGCACTAAACAGTCTTGTTTGAACGCTTTCTTCTATGTGTTGCTCATATATTTTTTTGCGTTACGCAATCTTCTGAGCATAACGAGAAGGGCTTTTGACCAACTGTAGTATGCAGGTAGTTAAGATTGAATCACATGAAGCAGATGATGTTATAGCCACACTTGTAGAACAGGTTCTACAAAGGGGGCACCGAGTTGTGGTTGCCTCTCCTGATAAAGACTTCAAACAACTGATATCTGATGATGTTCAAATTGTCATGCCAGTACCAGAGTTCAATAGATGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGAGTAAGTATGTCACACTCCTTTTAGGTGTGGTTTTATCTTAACTTAAGTTACTGGTTCATGTACTTATTGAAGCTAATAATATCTTATTCATAGCTGGAAGTTGAAAGTCGTTATTTTACTTCCTTGTAAGGCAGGGTTTGGGTGAGATTTAGAGAACTGTAGTTTTAAGAGATTCCCGTTTATATTAAAAGGTATATTATGGAGTAGTGAAATGAAGTGGTCCTGAATAGAGCACACCAAATATAGAGGATTCATATAACCAACCCCTGCTAGTTTGTGACTGACGTTTCACTGATTGGGATATGAACACTAAGAGAGGCGTAGTTAGGGAGTGGTTCTTTCCCGGAAGAGGGGTAAAATTGAAGGACGGTGTGGGAATTTAATCTTGGATAAGATATCTTTTTCTTCTAATTTTTACTACATCTTACTAAATATTTTTTCATACCAAATATTTTTAAAAGTTCTTCCATTGATATGAACATACCTTCAATACATCTGTAACTCTTTATTCTTCTCTTTTATCGTACCGGATTCGGTCAACCATTTTTGGGTACTTTGACCAAAATTGACAGAGAAATTCAGGACAACTACGATGATTTCTGTAATCAAAACAAAAGCTAACGTGAAATTGAAAAAAATGAAGTACCCTGTATACATAAATTTCTATGTCAGTCTTTTCCTTATACCACCTTCTGTAAATCTACTCTTGATCAATATTCTCTCCTCAGAATACCCTTTTAATTTACCTCATAATGTTCTCATAATTTAGACATGCAACTCCATTCTTAGACATTTGAATTATTTTTAGCCGAATCCCCGCACCCCTATCGGTACCCTTGAATCTTAAAATGTAGATCATGAAGGATCTGACCTCTAAATCTGCACCTGTATTTGACACCCGCACCCAAGTCCGAGCACCTTAGGTCAAGAACATCATGAAGACTACCTTTGCATTGTGAAGAAAGTGCAGGCGGCACTTGGTAAAATGAAGAACAAAAGCCTCTTTTGTTGCCATATAGCTTCATGTGTTTCATTTTATCCTGTTCTTCTTATAAGGCTTTAGCATTTTTCCATGTCTGCACTTCTGGGCTTTAGCAATATAGGCTAGCTACCGTAGGGGATGAGTGGATTTTTGATGCTTCAGTGTCGATGCTGTTAGAATTATCTAATCACCAGTTTTGTTCTCGAGTGTCTGCTGTTATTATGTTGGCTGCTAACTTTTTGTGGTTTTCTGGATAAGGGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAAT</genome_strand>
        <mrna_strand>TTTGTTACAAAGGAAGCATTCCTTCTTTGCAATCTTTTGCTCATTGGATTTCCCTTTTCTTCTCTCAAGTTAGCCTCACTGATCCTGTTATTGCT..............................................................................................................................................................................................................................................................................................................GTTATTGATGGAGAAAGAGGTAATGAGTATAGAAGACAGTTGTTACCTTCCTATAAAGCAAGTAGGAGGAAATACTGGCATCAGTTGCAAGGTGCAGTAAAATCTCCAAGGAGTACGATTGAAAGGTCACATAGGCTCATCTTGGATGTTCTTCAGAACTGCAATGTTCCT.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTAGTTAAGATTGAATCACATGAAGCAGATGATGTTATAGCCACACTTGTAGAACAGGTTCTACAAAGGGGGCACCGAGTCGTCGTTGCCTCTCCTGACAAAGACTTCAAACAGCTGATATCTGATGATGTTCAAATTGTCATGCCAGTACCAGAGTTCAATAGATGGTCCTTTTACACCCTAAAACACTATGTGGCACAGTACAATTGTGATCCAAGGTCTGATTTGAGCCTGA........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGTGCATACTGGGTGATGAGGTTGATGGTGTTCCTGGAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E745011" ref_strand="+" ref_description="SGN-E745011 [GI|5732017]">
      <seq>tttttttccatcctctccccacaaaaaatctttttcacaattttgtcaatcaaaaaaaaaaagaaaaaagaaaaaaatggcttgtggtgatgctgataaattgtgtcttgattcaataagaaagagtttaattagacaagaagataccattattttcaaccttattgaaagaatcaaattcccaataaatccaactttatacaaacaacaattacctccttcttccaatttttcaggatccttatttcaatacttgtttcaagaaacagaatcccttcaatctaaggttggtagatatttggccccagaggaaaatcctttcttcccagataatttgtctgactcaatcataccacttaccaaatgcacaccagttttgcatcctgcagcagaatcagtaaatgtaaatgagaaaatattggatatttatataaatcagatgcttccactattttgtaccgaggttaatgatgatgcaaattttgcaactactgctgcttgtgacattcagctattgcaggcactatctagaaggattcactatggaaaatttgttgctgaagttaaatttagagatagtattgatgaatataaaccatttattcttgctcaggatagagatgctttaatgaagttattaacatttgaagcggttgaagagatggtgaagaagagagtagcgaagaaagctaaagtgtttggtcaagaagtgagcttaaacgataatgctgaagaagtgaagggcaaaattgatccattgttagtttcacgtttatatgatgaatgggttatgcctttgactaaacttgtcgaagttgaatacctcctgcgtcgtcttgattaattgagcttattattattattgtaatgattttcgtcaccattatcatcatttgttattgttatcgatcgacatttatgcagatgaaaatgacgattcatgacatttgtgaattgccaaaaagttgagctaattgtcattctttagttatggatatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36145" stop="32062"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35845" g_stop="35559" g_length="287"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="286" r_length="286" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35558" i_stop="33836" i_length="1723">
            <donor d_prob="1.000" 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="33835" g_stop="33749" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="287" r_stop="373" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33618" g_stop="33472" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="374" r_stop="520" r_length="147" r_score="0.980"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33471" i_stop="32932" i_length="540">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.990" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="32931" g_stop="32839" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="521" r_stop="613" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="32838" i_stop="32749" i_length="90">
            <donor d_prob="0.973" d_score="1.00"/>
            <acceptor a_prob="1.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="32748" g_stop="32362" g_length="387"/>
          <reference_exon_boundary r_type="cDNA" r_start="614" r_stop="1000" r_length="387" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E745011" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>1001</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E745011" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35845" e_stop="35559"/>
          <exon e_start="33835" e_stop="33749"/>
          <exon e_start="33618" e_stop="33472"/>
          <exon e_start="32931" e_stop="32839"/>
          <exon e_start="32748" e_stop="32362"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAGGTAACAATTTCTCTTCTTCTGTTTGTTTTTCAAAGCCATAATCAGAATTTTTAAAGTGCTAATAATTAAGTTTTAGATTTGATATGCATATAAAATTTAATAAATGAACATAAAAATATTCTAAAAGTTATTAAATTCGATCGAACTGGTATTTGTTGTTAAAAGTTATTAAATTCGATCGTACTGATATTTGTTGTTAGGAGATGTTAATGGTGTTTGTCTTTTATATTCTTACTCTTTTGGTAGGTTTTCCTTATTTTTGGGAACTTAATATATTCCCTTGTTTACTTGTTTGCTATTTTAAATTTGGGTTGACCATGACTTATTTATATTTTATCTATTTTTTCACTACATAGTGGATGATTCTATAATGACACTTAGGTCTCATTTGTTTACATTTAAAAAGAGTTTGAATTTTAATTATTTAGATTGGTCCTTATATTTTAAAATTAAATTTTAATTATTTATATTTATTTTATTAAGTTTGTTTGTTTTGTTTTTTATAGTCTCTTAATGAATAAGATCTATAACATACTCTTAATATCACTGATATTCAAAAATAAAACTCATATATTAATTCAACTATATGAGTACAATTCATAAAAGTTGTTTTCTTACTTAATTAATGTTAATTACATGCTTACCGTTATAATTTTTTTTATTCTTATTAACTTAATATATGTTTTACTTTCATACATTAATCAATATATTTGAATTTCTATGCAATATAATATTTAGCACAATGCTAGAAAATAAGAAAGTATTAATTATTTAATCGATAGCAATAACAAATGTCTATTATAAAGTAAAATGTTTTCATAAATATTATATTATTATTATTCTATGTAAACTATTTTACATTGTATTATATTAGATTCTAATAGTTTTTGAGTGGAAATAATACTCATGTTGATGATGTAACTTAATGTTAAATTCTTAAAAGATAAATCATATTACCTTGTTACGATAAAAATGTTCAAAATATTATTTTTTATATAAAAAAAACTATTTTACTAAAATGAGATTTTTATAATATTTTATTGATATAACATTTAATTTTATATGAACATTCAAATATTGAAAATAAACAATCCTAATAATTTAGTGTTCAGAATCAAAAACAACATTTTTATTTGAATTTACACAACTAGATCTTAATGCACATCTTAATATTCAGATTTACATTCAATTTCAGATGTCTTAATCTTAATCGAAATAAATAAAACCTTAAATTTATAACGTATATCTAATCCACGCATTTATTTATCGTCCTTCTGAAGTTAGTTTAGTTGGATTTTGATTTGGCCATTGACTTTTTTTTCTTTCAATTTCTCCATTTATTTAATATTAGGATAATGGTACTTTTATCGTAATTTTCTAAAATGATCTATTAGATAAGGAATGATTTAACTTATGCTTACTTAAGTAATGATTACTAATTCAAAAAAGTTATGTTTCTTCTTGATTTTAATTGTTTTTAACAAATAAAATATTAAATACACGTTCATATTTAATTTAAAAATTTGAATTTGAGCTAAGAATATAAAGAGCTTTATCCTAAAGAAAAATTTATATCAATATACCATGATGGTAAACCAAAATAAATAAAATGATACAATTTACTCTGAACCAATAAAACAAATTAAATTTAGTTATTCAAAATTATCCATACATAAAGCAAAAAATAAATTTCTTTAATTTAATTGATTTTATTATATAACAGGTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCAGTAAGTACCTATTTATTAGATTAAATAATGTATATATATATTTTTAAAAAATAATTATGTTGTGTTTTTAACTGGAATTAAAAAAATCATAATAATTTTTTCTAATTAATTTTATTTGTATACTATATAGGTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAGGTAAATATTTATTCGCATTCAATATTTTTATTAAATTAAATAATTTAATTTTATAATTAACAATTAAATTAAATATTATATCACTTAATCGTAATTAAATAAAAAAATAACTGTACGAAAGAAAACACGTCTTGCATTCGAGTTGTTTGTTGTAAACACAAAATATGAGTAACTTTTTTTTTTTTAAAACTCAAAATAAGATCACGATCCATTGACTAATATATGTCGCTATATATATAACTTATATAATGAAACAATTTATTTTATTATTGTAATATAAATAATCGAATAAATAATTTTGAGATTGGACAAATACTCCCAATTAATCAAATACAAAATAAAAATAATTCTATAATTATTTTTGAGATTATTATTTGTTTTTCCTCATATGACCCCTAATTCTCTTTTTTTTTGTTCTTCAAAAAGAAATTTAGCGTAGTAAAAAGAAGATATTATTTTAAAAATTTTCGTTTGAGGTTTAATATTTATTTTAAAGTCTGATGAATTTTATAAGCTTTTTTATTTTTTATTTTGTTGAAGGCACTATCTAGAAGGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAGGTATCTCATTACTTACAATTAATTATAGTGTACTCATTCACAATTCATACAGTAATATTAGTAATTTTTGATATATCGTTGTTGTTGCAGGATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAACGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGTAATGATTTTCGTCACCATTATTATCATTTGTTATTGTTATCGATCGACATTTATGCAGATGAAAATGACGATTCATGACATTTGTGAATTGCCAAAAAGTTGAGCTAATTGTCATTCTTTAGTTATGGATATGA</genome_strand>
        <mrna_strand>TTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAGAA-AAAAGAAAAAAATGGCTTGTGGTGATGCTGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTTCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCTAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCA..................................................................................................................................GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACCGAGGTTAATGATGATGCAAATTTTGCAACTACTGCTGCTTGTGACATTCAGCTATTGCAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACTATCTAGAAGGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAG..........................................................................................GATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAATGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGTAATGATTTTCGTCACCATTATCATCATTTGTTATTGTTATCGATCGACATTTATGCAGATGAAAATGACGATTCATGACATTTGTGAATTGCCAAAAAGTTGAGCTAATTGTCATTCTTTAGTTATGGATATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E283992" ref_strand="-" ref_description="SGN-E283992 [cLER-13-J16]">
      <seq>ttcactatggaaaatttgttgctgaagttaaatttagagatagtattgatgaatataaaccatttattcttgctcaggatagagatgctttaatgaagttattaacatttgaagcggttgaagagatggtgaagaagagagtagcgaagaaagctaaagtgtttggtcaagaagtgagcttaaacgataacgctgaagaagtgaagggcaaaattgatccattgttagtttcacgtttatatgatgaatgggttatgcctttgactaaacttgtcgaagttgaatacctcctgcgtcgtcttgattaattgagcttattattattattgtaatgattttcgtcaccattattatcatttgttattgttatcgatcgacatttatgcagatgaaaatgacgattcatgacatttgtgaattgccaaaaagttgagctaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="33215" stop="32088"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="32915" g_stop="32839" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="77" r_length="77" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="32838" i_stop="32749" i_length="90">
            <donor d_prob="0.973" 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="32748" g_stop="32382" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="78" r_stop="444" r_length="367" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E283992" ref_strand="-">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>444</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283992" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="32915" e_stop="32839"/>
          <exon e_start="32748" e_stop="32382"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAGGTATCTCATTACTTACAATTAATTATAGTGTACTCATTCACAATTCATACAGTAATATTAGTAATTTTTGATATATCGTTGTTGTTGCAGGATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAACGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGTAATGATTTTCGTCACCATTATTATCATTTGTTATTGTTATCGATCGACATTTATGCAGATGAAAATGACGATTCATGACATTTGTGAATTGCCAAAAAGTTGAGCTAATTGTCA</genome_strand>
        <mrna_strand>TTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAG..........................................................................................GATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAACGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGTAATGATTTTCGTCACCATTATTATCATTTGTTATTGTTATCGATCGACATTTATGCAGATGAAAATGACGATTCATGACATTTGTGAATTGCCAAAAAGTTGAGCTAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E246317" ref_strand="+" ref_description="SGN-E246317 [cLEF-40-P17]">
      <seq>aatgatgatgcaaactttgcaactactgctgcttgtgacattcaactcttgcaagcactatctagaaagattcactatggaaaatttgttgctgaagttaaatttatagatagtattgatgaatataaaccatttattcttgctcaagatagaaatgctttaatgaagttattaacatttgaagcggttgaagagatggtgaataagaaaatagcgaagaaagctaaagtgtttggtcaagaagtgagcttaaacgattacgctcaacaagtgaagggcaaaattgatccattgttagtttcacgtttatatgatgaatgggatatgcctttgactaaacttgtcgaagttgaatacctcctgcgtcgacttgattaattgagcttatcattattattgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="33825" stop="32196"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="33525" g_stop="33472" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="0.963"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="33471" i_stop="32932" i_length="540">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.990" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="32931" g_stop="32839" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="147" r_length="93" r_score="0.968"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="32838" i_stop="32749" i_length="90">
            <donor d_prob="0.973" d_score="0.96"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="32748" g_stop="32496" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="400" r_length="253" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E246317" ref_strand="+">
        <total_alignment_score>0.962</total_alignment_score>
        <cumulative_length_of_scored_exons>400</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246317" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="33525" e_stop="33472"/>
          <exon e_start="32931" e_stop="32839"/>
          <exon e_start="32748" e_stop="32496"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAGGTAAATATTTATTCGCATTCAATATTTTTATTAAATTAAATAATTTAATTTTATAATTAACAATTAAATTAAATATTATATCACTTAATCGTAATTAAATAAAAAAATAACTGTACGAAAGAAAACACGTCTTGCATTCGAGTTGTTTGTTGTAAACACAAAATATGAGTAACTTTTTTTTTTTTAAAACTCAAAATAAGATCACGATCCATTGACTAATATATGTCGCTATATATATAACTTATATAATGAAACAATTTATTTTATTATTGTAATATAAATAATCGAATAAATAATTTTGAGATTGGACAAATACTCCCAATTAATCAAATACAAAATAAAAATAATTCTATAATTATTTTTGAGATTATTATTTGTTTTTCCTCATATGACCCCTAATTCTCTTTTTTTTTGTTCTTCAAAAAGAAATTTAGCGTAGTAAAAAGAAGATATTATTTTAAAAATTTTCGTTTGAGGTTTAATATTTATTTTAAAGTCTGATGAATTTTATAAGCTTTTTTATTTTTTATTTTGTTGAAGGCACTATCTAGAAGGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAGGTATCTCATTACTTACAATTAATTATAGTGTACTCATTCACAATTCATACAGTAATATTAGTAATTTTTGATATATCGTTGTTGTTGCAGGATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAACGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGT</genome_strand>
        <mrna_strand>AATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAACTCTTGCAA............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACTATCTAGAAAGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTATAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAA..........................................................................................GATAGAAATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAATAAGAAAATAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATTACGCTCAACAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGATATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGACTTGATTAATTGAGCTTATCATTATTATTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E574625" ref_strand="+" ref_description="SGN-E574625 [34121]">
      <seq>cttcattttttctttcttcctctccccacataaaatctttttcagaattttttcaatcaaaaaaagaaaaaaaaatggcttgtggtgatgatggtaaattgagtcttgattcaataagagattgtttaattagacaagaagataccatcattttcaaccttattgaaagaatcaaattcccaataaatccaactttatacaaacaacaattacctccttcaaatatttcaggatccttgtttcaatacttgtttcaagaaacagaagctcttcaatctaaggttggtagatacttatccccagaggaaaatcctttcttcccagataatttgtctgactcaattataccacttaccaaatgcacaccagttttgcatcctgcagcagaatcagtaaatgtaaatgagaaaatattggatatttatataaatcaaatgcttccattattttgtactgaggctaatgatgatgcaaactttgcaactactgctgcttgtgacattcagttattgcaggcactatctagaagaattcactatggaaaatttgttgctgaagttaaattcagggatagcactgatgaatataaaccgtntattcttgctcaggataaggatgctttaatgaatttattaacatttgagggcggttgaaggagatggtaaagaagagagttcgcgaaagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36090" stop="32536"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35852" g_stop="35559" g_length="294"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="281" r_length="281" r_score="0.878"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35558" i_stop="33836" i_length="1723">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.999" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33835" g_stop="33749" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="282" r_stop="368" r_length="87" r_score="0.954"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33618" g_stop="33472" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="369" r_stop="515" r_length="147" r_score="0.966"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33471" i_stop="32932" i_length="540">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.990" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="32931" g_stop="32839" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="516" r_stop="608" r_length="93" r_score="0.925"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="32838" i_stop="32749" i_length="90">
            <donor d_prob="0.973" d_score="0.88"/>
            <acceptor a_prob="1.000" a_score="0.83"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="32748" g_stop="32674" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="609" r_stop="687" r_length="79" r_score="0.813"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E574625" ref_strand="+">
        <total_alignment_score>0.905</total_alignment_score>
        <cumulative_length_of_scored_exons>696</cumulative_length_of_scored_exons>
        <coverage percentage="1.013" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E574625" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35852" e_stop="35559"/>
          <exon e_start="33835" e_stop="33749"/>
          <exon e_start="33618" e_stop="33472"/>
          <exon e_start="32931" e_stop="32839"/>
          <exon e_start="32748" e_stop="32674"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCATTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAGGTAACAATTTCTCTTCTTCTGTTTGTTTTTCAAAGCCATAATCAGAATTTTTAAAGTGCTAATAATTAAGTTTTAGATTTGATATGCATATAAAATTTAATAAATGAACATAAAAATATTCTAAAAGTTATTAAATTCGATCGAACTGGTATTTGTTGTTAAAAGTTATTAAATTCGATCGTACTGATATTTGTTGTTAGGAGATGTTAATGGTGTTTGTCTTTTATATTCTTACTCTTTTGGTAGGTTTTCCTTATTTTTGGGAACTTAATATATTCCCTTGTTTACTTGTTTGCTATTTTAAATTTGGGTTGACCATGACTTATTTATATTTTATCTATTTTTTCACTACATAGTGGATGATTCTATAATGACACTTAGGTCTCATTTGTTTACATTTAAAAAGAGTTTGAATTTTAATTATTTAGATTGGTCCTTATATTTTAAAATTAAATTTTAATTATTTATATTTATTTTATTAAGTTTGTTTGTTTTGTTTTTTATAGTCTCTTAATGAATAAGATCTATAACATACTCTTAATATCACTGATATTCAAAAATAAAACTCATATATTAATTCAACTATATGAGTACAATTCATAAAAGTTGTTTTCTTACTTAATTAATGTTAATTACATGCTTACCGTTATAATTTTTTTTATTCTTATTAACTTAATATATGTTTTACTTTCATACATTAATCAATATATTTGAATTTCTATGCAATATAATATTTAGCACAATGCTAGAAAATAAGAAAGTATTAATTATTTAATCGATAGCAATAACAAATGTCTATTATAAAGTAAAATGTTTTCATAAATATTATATTATTATTATTCTATGTAAACTATTTTACATTGTATTATATTAGATTCTAATAGTTTTTGAGTGGAAATAATACTCATGTTGATGATGTAACTTAATGTTAAATTCTTAAAAGATAAATCATATTACCTTGTTACGATAAAAATGTTCAAAATATTATTTTTTATATAAAAAAAACTATTTTACTAAAATGAGATTTTTATAATATTTTATTGATATAACATTTAATTTTATATGAACATTCAAATATTGAAAATAAACAATCCTAATAATTTAGTGTTCAGAATCAAAAACAACATTTTTATTTGAATTTACACAACTAGATCTTAATGCACATCTTAATATTCAGATTTACATTCAATTTCAGATGTCTTAATCTTAATCGAAATAAATAAAACCTTAAATTTATAACGTATATCTAATCCACGCATTTATTTATCGTCCTTCTGAAGTTAGTTTAGTTGGATTTTGATTTGGCCATTGACTTTTTTTTCTTTCAATTTCTCCATTTATTTAATATTAGGATAATGGTACTTTTATCGTAATTTTCTAAAATGATCTATTAGATAAGGAATGATTTAACTTATGCTTACTTAAGTAATGATTACTAATTCAAAAAAGTTATGTTTCTTCTTGATTTTAATTGTTTTTAACAAATAAAATATTAAATACACGTTCATATTTAATTTAAAAATTTGAATTTGAGCTAAGAATATAAAGAGCTTTATCCTAAAGAAAAATTTATATCAATATACCATGATGGTAAACCAAAATAAATAAAATGATACAATTTACTCTGAACCAATAAAACAAATTAAATTTAGTTATTCAAAATTATCCATACATAAAGCAAAAAATAAATTTCTTTAATTTAATTGATTTTATTATATAACAGGTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCAGTAAGTACCTATTTATTAGATTAAATAATGTATATATATATTTTTAAAAAATAATTATGTTGTGTTTTTAACTGGAATTAAAAAAATCATAATAATTTTTTCTAATTAATTTTATTTGTATACTATATAGGTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAGGTAAATATTTATTCGCATTCAATATTTTTATTAAATTAAATAATTTAATTTTATAATTAACAATTAAATTAAATATTATATCACTTAATCGTAATTAAATAAAAAAATAACTGTACGAAAGAAAACACGTCTTGCATTCGAGTTGTTTGTTGTAAACACAAAATATGAGTAACTTTTTTTTTTTTAAAACTCAAAATAAGATCACGATCCATTGACTAATATATGTCGCTATATATATAACTTATATAATGAAACAATTTATTTTATTATTGTAATATAAATAATCGAATAAATAATTTTGAGATTGGACAAATACTCCCAATTAATCAAATACAAAATAAAAATAATTCTATAATTATTTTTGAGATTATTATTTGTTTTTCCTCATATGACCCCTAATTCTCTTTTTTTTTGTTCTTCAAAAAGAAATTTAGCGTAGTAAAAAGAAGATATTATTTTAAAAATTTTCGTTTGAGGTTTAATATTTATTTTAAAGTCTGATGAATTTTATAAGCTTTTTTATTTTTTATTTTGTTGAAGGCACTATCTAGAAGGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAGGTATCTCATTACTTACAATTAATTATAGTGTACTCATTCACAATTCATACAGTAATATTAGTAATTTTTGATATATCGTTGTTGTTGCAGGATAGAGATGCTTTAATGAAGTTATTAACATTTGA-AGCGGTTGAA-GAGATGGTGAAGAAGAGAG-TAGCG-AAGAAA</genome_strand>
        <mrna_strand>CTTCATTTTTTCTTTCTTCCTCTCCCCACATAAAATCTTTTTCAGAATTTTTTCAATC-----A--AAAAAAGA-AA-AAAAAA-TGGCTTGTGGTGATGATGGTAAATTGAGTCTTGATTCAATAAGAGATTGTTTAATTAGACAAGAAGATACCATCATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTA---CCTCCTTCAAATATTTCAGGATCCTTGTTTCAATACTTGTTTCAAGAAACAGAAGCTCTTCAATCTAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTAGATACTTATCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATTATACCACTTACCAAATGCACACCA..................................................................................................................................GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAAATGCTTCCATTATTTTGTACTGAGGCTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGTTATTGCAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACTATCTAGAAGAATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTCAGGGATAGCACTGATGAATATAAACCGTNTATTCTTGCTCAG..........................................................................................GATAAGGATGCTTTAATGAATTTATTAACATTTGAGGGCGGTTGAAGGAGATGGTAAAGAAGAGAGTTCGCGAAAGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E280404" ref_strand="+" ref_description="SGN-E280404 [cLER-1-L13]">
      <seq>aaagaaaagaaaaaaatggcttgtggtgatgatgataaattgtgtcttgattcaataagaaagagtttaattagacaagaagataccattattttcaaccttattgaaagaatcaaattcccaataaatccaactttatacaaacaacaattacctcctccttccaatttttcaggatccttatttcaatacttgtttcaagaaacagaatcccttcaatccaaggttggtagatatttggccccagaggaaaatcctttcttcccagataatttgtctgactcaatcataccacttaccaaatgcacaccagttttgcatcctgcagcagaatcagtaaatgtaaatgagaaaatattggatatttatataaatcagatgcttccactattttgtactgaggttaatgatgatgcaaactttgcaactactgctgcttgtgacattcagctcttgcaggcactatctagaaggattcactatggaaaattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36083" stop="32599"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35783" g_stop="35559" 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="35558" i_stop="33836" i_length="1723">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33835" g_stop="33749" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="312" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33618" g_stop="33472" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="313" r_stop="459" r_length="147" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="33471" i_stop="32932" i_length="540">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.990" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="32931" g_stop="32899" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="460" r_stop="492" r_length="33" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E280404" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>492</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280404" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35783" e_stop="35559"/>
          <exon e_start="33835" e_stop="33749"/>
          <exon e_start="33618" e_stop="33472"/>
          <exon e_start="32931" e_stop="32899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAGGTAACAATTTCTCTTCTTCTGTTTGTTTTTCAAAGCCATAATCAGAATTTTTAAAGTGCTAATAATTAAGTTTTAGATTTGATATGCATATAAAATTTAATAAATGAACATAAAAATATTCTAAAAGTTATTAAATTCGATCGAACTGGTATTTGTTGTTAAAAGTTATTAAATTCGATCGTACTGATATTTGTTGTTAGGAGATGTTAATGGTGTTTGTCTTTTATATTCTTACTCTTTTGGTAGGTTTTCCTTATTTTTGGGAACTTAATATATTCCCTTGTTTACTTGTTTGCTATTTTAAATTTGGGTTGACCATGACTTATTTATATTTTATCTATTTTTTCACTACATAGTGGATGATTCTATAATGACACTTAGGTCTCATTTGTTTACATTTAAAAAGAGTTTGAATTTTAATTATTTAGATTGGTCCTTATATTTTAAAATTAAATTTTAATTATTTATATTTATTTTATTAAGTTTGTTTGTTTTGTTTTTTATAGTCTCTTAATGAATAAGATCTATAACATACTCTTAATATCACTGATATTCAAAAATAAAACTCATATATTAATTCAACTATATGAGTACAATTCATAAAAGTTGTTTTCTTACTTAATTAATGTTAATTACATGCTTACCGTTATAATTTTTTTTATTCTTATTAACTTAATATATGTTTTACTTTCATACATTAATCAATATATTTGAATTTCTATGCAATATAATATTTAGCACAATGCTAGAAAATAAGAAAGTATTAATTATTTAATCGATAGCAATAACAAATGTCTATTATAAAGTAAAATGTTTTCATAAATATTATATTATTATTATTCTATGTAAACTATTTTACATTGTATTATATTAGATTCTAATAGTTTTTGAGTGGAAATAATACTCATGTTGATGATGTAACTTAATGTTAAATTCTTAAAAGATAAATCATATTACCTTGTTACGATAAAAATGTTCAAAATATTATTTTTTATATAAAAAAAACTATTTTACTAAAATGAGATTTTTATAATATTTTATTGATATAACATTTAATTTTATATGAACATTCAAATATTGAAAATAAACAATCCTAATAATTTAGTGTTCAGAATCAAAAACAACATTTTTATTTGAATTTACACAACTAGATCTTAATGCACATCTTAATATTCAGATTTACATTCAATTTCAGATGTCTTAATCTTAATCGAAATAAATAAAACCTTAAATTTATAACGTATATCTAATCCACGCATTTATTTATCGTCCTTCTGAAGTTAGTTTAGTTGGATTTTGATTTGGCCATTGACTTTTTTTTCTTTCAATTTCTCCATTTATTTAATATTAGGATAATGGTACTTTTATCGTAATTTTCTAAAATGATCTATTAGATAAGGAATGATTTAACTTATGCTTACTTAAGTAATGATTACTAATTCAAAAAAGTTATGTTTCTTCTTGATTTTAATTGTTTTTAACAAATAAAATATTAAATACACGTTCATATTTAATTTAAAAATTTGAATTTGAGCTAAGAATATAAAGAGCTTTATCCTAAAGAAAAATTTATATCAATATACCATGATGGTAAACCAAAATAAATAAAATGATACAATTTACTCTGAACCAATAAAACAAATTAAATTTAGTTATTCAAAATTATCCATACATAAAGCAAAAAATAAATTTCTTTAATTTAATTGATTTTATTATATAACAGGTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCAGTAAGTACCTATTTATTAGATTAAATAATGTATATATATATTTTTAAAAAATAATTATGTTGTGTTTTTAACTGGAATTAAAAAAATCATAATAATTTTTTCTAATTAATTTTATTTGTATACTATATAGGTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAGGTAAATATTTATTCGCATTCAATATTTTTATTAAATTAAATAATTTAATTTTATAATTAACAATTAAATTAAATATTATATCACTTAATCGTAATTAAATAAAAAAATAACTGTACGAAAGAAAACACGTCTTGCATTCGAGTTGTTTGTTGTAAACACAAAATATGAGTAACTTTTTTTTTTTTAAAACTCAAAATAAGATCACGATCCATTGACTAATATATGTCGCTATATATATAACTTATATAATGAAACAATTTATTTTATTATTGTAATATAAATAATCGAATAAATAATTTTGAGATTGGACAAATACTCCCAATTAATCAAATACAAAATAAAAATAATTCTATAATTATTTTTGAGATTATTATTTGTTTTTCCTCATATGACCCCTAATTCTCTTTTTTTTTGTTCTTCAAAAAGAAATTTAGCGTAGTAAAAAGAAGATATTATTTTAAAAATTTTCGTTTGAGGTTTAATATTTATTTTAAAGTCTGATGAATTTTATAAGCTTTTTTATTTTTTATTTTGTTGAAGGCACTATCTAGAAGGATTCACTATGGAAAATTT</genome_strand>
        <mrna_strand>AAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCA..................................................................................................................................GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAG............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCACTATCTAGAAGGATTCACTATGGAAAATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E238180" ref_strand="+" ref_description="SGN-E238180 [cLED-22-I1]">
      <seq>ttccattctctccccacaaaaaatctttttcacaattttgtcaatcaaaaaaaaaaaaaaagaaaagaaaaaaatggcttgtggtgatgatgataaattgtgtcttgattcaataagaaagagtttaattagacaagaagataccattattttcaaccttattgaaagaatcaaattcccaataaatccaactttatacaaacaacaattacctccttcttccaatttttcaggatccttatttcaatacttggttcaagaaacaaaatcccttcaatccaagggttggtagaatatttggccccagaggaaaatcctttcttcccagataatttgtctgactcaatcataccacttaccaaatgcacaccagttttgcatcctgcagcagaatcagtaaatgtaaatgagaaaatattggatatttatataaatcagatgcttccactatttttggactgagggtaatgatgatgcaaactttgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36140" stop="33205"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35840" g_stop="35559" g_length="282"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="284" r_length="284" r_score="0.972"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35558" i_stop="33836" i_length="1723">
            <donor d_prob="1.000" d_score="0.92"/>
            <acceptor a_prob="0.999" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33835" g_stop="33749" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="372" r_length="88" r_score="0.977"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33618" g_stop="33505" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="373" r_stop="487" r_length="115" r_score="0.965"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E238180" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>483</cumulative_length_of_scored_exons>
        <coverage percentage="0.992" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E238180" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35840" e_stop="35559"/>
          <exon e_start="33835" e_stop="33749"/>
          <exon e_start="33618" e_stop="33505"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATC-AAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAA-GGTAACAATTTCTCTTCTTCTGTTTGTTTTTCAAAGCCATAATCAGAATTTTTAAAGTGCTAATAATTAAGTTTTAGATTTGATATGCATATAAAATTTAATAAATGAACATAAAAATATTCTAAAAGTTATTAAATTCGATCGAACTGGTATTTGTTGTTAAAAGTTATTAAATTCGATCGTACTGATATTTGTTGTTAGGAGATGTTAATGGTGTTTGTCTTTTATATTCTTACTCTTTTGGTAGGTTTTCCTTATTTTTGGGAACTTAATATATTCCCTTGTTTACTTGTTTGCTATTTTAAATTTGGGTTGACCATGACTTATTTATATTTTATCTATTTTTTCACTACATAGTGGATGATTCTATAATGACACTTAGGTCTCATTTGTTTACATTTAAAAAGAGTTTGAATTTTAATTATTTAGATTGGTCCTTATATTTTAAAATTAAATTTTAATTATTTATATTTATTTTATTAAGTTTGTTTGTTTTGTTTTTTATAGTCTCTTAATGAATAAGATCTATAACATACTCTTAATATCACTGATATTCAAAAATAAAACTCATATATTAATTCAACTATATGAGTACAATTCATAAAAGTTGTTTTCTTACTTAATTAATGTTAATTACATGCTTACCGTTATAATTTTTTTTATTCTTATTAACTTAATATATGTTTTACTTTCATACATTAATCAATATATTTGAATTTCTATGCAATATAATATTTAGCACAATGCTAGAAAATAAGAAAGTATTAATTATTTAATCGATAGCAATAACAAATGTCTATTATAAAGTAAAATGTTTTCATAAATATTATATTATTATTATTCTATGTAAACTATTTTACATTGTATTATATTAGATTCTAATAGTTTTTGAGTGGAAATAATACTCATGTTGATGATGTAACTTAATGTTAAATTCTTAAAAGATAAATCATATTACCTTGTTACGATAAAAATGTTCAAAATATTATTTTTTATATAAAAAAAACTATTTTACTAAAATGAGATTTTTATAATATTTTATTGATATAACATTTAATTTTATATGAACATTCAAATATTGAAAATAAACAATCCTAATAATTTAGTGTTCAGAATCAAAAACAACATTTTTATTTGAATTTACACAACTAGATCTTAATGCACATCTTAATATTCAGATTTACATTCAATTTCAGATGTCTTAATCTTAATCGAAATAAATAAAACCTTAAATTTATAACGTATATCTAATCCACGCATTTATTTATCGTCCTTCTGAAGTTAGTTTAGTTGGATTTTGATTTGGCCATTGACTTTTTTTTCTTTCAATTTCTCCATTTATTTAATATTAGGATAATGGTACTTTTATCGTAATTTTCTAAAATGATCTATTAGATAAGGAATGATTTAACTTATGCTTACTTAAGTAATGATTACTAATTCAAAAAAGTTATGTTTCTTCTTGATTTTAATTGTTTTTAACAAATAAAATATTAAATACACGTTCATATTTAATTTAAAAATTTGAATTTGAGCTAAGAATATAAAGAGCTTTATCCTAAAGAAAAATTTATATCAATATACCATGATGGTAAACCAAAATAAATAAAATGATACAATTTACTCTGAACCAATAAAACAAATTAAATTTAGTTATTCAAAATTATCCATACATAAAGCAAAAAATAAATTTCTTTAATTTAATTGATTTTATTATATAACAGGTTGGTAG-ATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCAGTAAGTACCTATTTATTAGATTAAATAATGTATATATATATTTTTAAAAAATAATTATGTTGTGTTTTTAACTGGAATTAAAAAAATCATAATAATTTTTTCTAATTAATTTTATTTGTATACTATATAGGTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTA-TTTTGTACTGAGGTTAATGATGATGCAAACTTTGCA</genome_strand>
        <mrna_strand>TTCCATTCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTTCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGGTTCAAGAAACAAAATCCCTTCAATCCAAGG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTAGAATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCA..................................................................................................................................GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTTGGACTGAGGGTAATGATGATGCAAACTTTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E239772" ref_strand="+" ref_description="SGN-E239772 [cLED-29-G5]">
      <seq>ttctttctctcatttttttccatcctctccccacaaaaaatctttttcacaattttgtcaatcaaaaaaaaaaaaaaagaaaagaaaaaaatggcttgtggtgatgatgataaattgtgtcttgattcaataagaaagagtttaattagacaagaagataccattattttcaaccttattgaaagaatcaaattcccaataaatccaactttatacaaacaacaattacctccttcttccaatttttcaggatccttatttcaatacttgtttcaagaaacagaatcccttcaatccaaggttggtagatatttggccccagaggaaaatcctttcttcccagataatttgtctgactcaatcataccacttaccaaatgcacaccagttttgcatcctgcagcagaatcagtaaatgtaaatgagaaaatattggatatttatataaatcagatgcttccactattttgtactgaggttaatgatgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36157" stop="33216"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35857" g_stop="35559" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="300" r_length="300" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="35558" i_stop="33836" i_length="1723">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="33835" g_stop="33749" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="301" r_stop="387" r_length="87" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="33618" g_stop="33516" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="388" r_stop="490" r_length="103" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E239772" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>489</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E239772" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35857" e_stop="35559"/>
          <exon e_start="33835" e_stop="33749"/>
          <exon e_start="33618" e_stop="33516"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTTTCTCTCATTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAA-AAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAGGTAACAATTTCTCTTCTTCTGTTTGTTTTTCAAAGCCATAATCAGAATTTTTAAAGTGCTAATAATTAAGTTTTAGATTTGATATGCATATAAAATTTAATAAATGAACATAAAAATATTCTAAAAGTTATTAAATTCGATCGAACTGGTATTTGTTGTTAAAAGTTATTAAATTCGATCGTACTGATATTTGTTGTTAGGAGATGTTAATGGTGTTTGTCTTTTATATTCTTACTCTTTTGGTAGGTTTTCCTTATTTTTGGGAACTTAATATATTCCCTTGTTTACTTGTTTGCTATTTTAAATTTGGGTTGACCATGACTTATTTATATTTTATCTATTTTTTCACTACATAGTGGATGATTCTATAATGACACTTAGGTCTCATTTGTTTACATTTAAAAAGAGTTTGAATTTTAATTATTTAGATTGGTCCTTATATTTTAAAATTAAATTTTAATTATTTATATTTATTTTATTAAGTTTGTTTGTTTTGTTTTTTATAGTCTCTTAATGAATAAGATCTATAACATACTCTTAATATCACTGATATTCAAAAATAAAACTCATATATTAATTCAACTATATGAGTACAATTCATAAAAGTTGTTTTCTTACTTAATTAATGTTAATTACATGCTTACCGTTATAATTTTTTTTATTCTTATTAACTTAATATATGTTTTACTTTCATACATTAATCAATATATTTGAATTTCTATGCAATATAATATTTAGCACAATGCTAGAAAATAAGAAAGTATTAATTATTTAATCGATAGCAATAACAAATGTCTATTATAAAGTAAAATGTTTTCATAAATATTATATTATTATTATTCTATGTAAACTATTTTACATTGTATTATATTAGATTCTAATAGTTTTTGAGTGGAAATAATACTCATGTTGATGATGTAACTTAATGTTAAATTCTTAAAAGATAAATCATATTACCTTGTTACGATAAAAATGTTCAAAATATTATTTTTTATATAAAAAAAACTATTTTACTAAAATGAGATTTTTATAATATTTTATTGATATAACATTTAATTTTATATGAACATTCAAATATTGAAAATAAACAATCCTAATAATTTAGTGTTCAGAATCAAAAACAACATTTTTATTTGAATTTACACAACTAGATCTTAATGCACATCTTAATATTCAGATTTACATTCAATTTCAGATGTCTTAATCTTAATCGAAATAAATAAAACCTTAAATTTATAACGTATATCTAATCCACGCATTTATTTATCGTCCTTCTGAAGTTAGTTTAGTTGGATTTTGATTTGGCCATTGACTTTTTTTTCTTTCAATTTCTCCATTTATTTAATATTAGGATAATGGTACTTTTATCGTAATTTTCTAAAATGATCTATTAGATAAGGAATGATTTAACTTATGCTTACTTAAGTAATGATTACTAATTCAAAAAAGTTATGTTTCTTCTTGATTTTAATTGTTTTTAACAAATAAAATATTAAATACACGTTCATATTTAATTTAAAAATTTGAATTTGAGCTAAGAATATAAAGAGCTTTATCCTAAAGAAAAATTTATATCAATATACCATGATGGTAAACCAAAATAAATAAAATGATACAATTTACTCTGAACCAATAAAACAAATTAAATTTAGTTATTCAAAATTATCCATACATAAAGCAAAAAATAAATTTCTTTAATTTAATTGATTTTATTATATAACAGGTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCAGTAAGTACCTATTTATTAGATTAAATAATGTATATATATATTTTTAAAAAATAATTATGTTGTGTTTTTAACTGGAATTAAAAAAATCATAATAATTTTTTCTAATTAATTTTATTTGTATACTATATAGGTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATG</genome_strand>
        <mrna_strand>TTCTTTCTCTCATTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTTCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAG...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCA..................................................................................................................................GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E370508" ref_strand="+" ref_description="SGN-E370508 [TUS-29-K1]">
      <seq>aaagaaaagaaaaaaatggcttgtggtgatgatgataaattgtgtcttgattcaataagacagagtttaattagacaagaaaataccattatttttatccttattgaaataattcaacttaccaataaattcaactttatacttacaacatttacctcctctttccaattttttatgatcctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="36083" stop="35302"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="35783" g_stop="35602" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="183" r_length="183" r_score="0.912"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E370508" ref_strand="+">
        <total_alignment_score>0.912</total_alignment_score>
        <cumulative_length_of_scored_exons>182</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E370508" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="35783" e_stop="35602"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAA-TCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTT</genome_strand>
        <mrna_strand>AAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGACAGAGTTTAATTAGACAAGAAAATACCATTATTTTTATCCTTATTGAAATAATTCAACTTACCAATAAATTCAACTTTATACTTACAACATTTACCTCCTCTTTCCAATTTTTTATGATCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E298638" ref_strand="+" ref_description="SGN-E298638 [cLET-44-A20]">
      <seq>tcattacatcggatttcagggtgagctaacgcttctagcttggactggatcttcttcttcatgtcttgatgccttgaagttccggcatggactagctgtttatgtattttagcttcttagatactcttagatttagtaatttgaagtacatgttcttgtgatgatgactgccagattttggggataataatagttgttgagtttttagaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="-" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="38563" stop="37754"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38263" g_stop="38045" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="219" r_length="219" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="-" ref_id="SGN-E298638" ref_strand="+">
        <total_alignment_score>0.904</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="C00SLm0121I03.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298638" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38263" e_stop="38045"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGTACTCCGGATTTCAGGGTGAGCTAATGCTTCTAGCTTGGACTGGATCTTCCTCTTCATGTCTTGATACCTTGAAGTTCCGGCATGAACTAGCTTTTTATGTATTTAAGCTTCTTAGATACTCTTAGA-TTAGTAATTTGAGGATAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAGTTATTGAA</genome_strand>
        <mrna_strand>TCATTACATCGGATTTCAGGGTGAGCTAACGCTTCTAGCTTGGACTGGATCTTCTTCTTCATGTCTTGATGCCTTGAAGTTCCGGCATGGACTAGCTGTTTATGTATTTTAGCTTCTTAGATACTCTTAGATTTAGTAATTTGAAG-TACATGTTCTTGTGATGATGACTGCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/gth_cdna_fileCXGN::TomatoGenome::BACSubmission::Analysis::GenomeThreader::SGN_E_tomato_potato" ref_id="SGN-E577888" ref_strand="+" ref_description="SGN-E577888 [LE08BA01]">
      <seq>ctacatctcctaccatacaatgcttcaaatggagccatatcaatgcttgattgatagctattattgtatgaaaactccgctaagggtaggaagctatcccaatgaccaccaaactctatcacacacgcacgaagcatattctccaacacttgaatcgttcgctcagactgaccatcgggagaactagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C00SLm0121I03-UIgCS/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C00SLm0121I03.1" temp_strand="+" temp_description="C00SLm0121I03.1  CU457805.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0121I03 sequenced_by:sanger upload_account_name:uk">
        <position start="40033" stop="40810"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40333" g_stop="40509" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C00SLm0121I03.1" gen_strand="+" ref_id="SGN-E577888" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>177</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C00SLm0121I03.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E577888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40333" e_stop="40509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACATCTCCTACCATACAATGCTTCAAATGGGGCCATGTCAATACTTGAGTGATAGCTATTATTGTATGAAAACTCCGCTAAGGGTAAGAAGTTATCCCAATGACCACCAAATTCTATCACACAAGCACGAAGTATATCCTCCAACACTTGAATCGTTCGCTCAGATTGACCACCG</genome_strand>
        <mrna_strand>CTACATCTCCTACCATACAATGCTTCAAATGGAGCCATATCAATGCTTGATTGATAGCTATTATTGTATGAAAACTCCGCTAAGGGTAGGAAGCTATCCCAATGACCACCAAACTCTATCACACACGCACGAAGCATATTCTCCAACACTTGAATCGTTCGCTCAGACTGACCATCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>34</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="13536" PGL_stop="9404"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="13536" e_stop="13175"/>
            <exon e_start="13006" e_stop="12946"/>
            <exon e_start="11695" e_stop="11403"/>
            <exon e_start="11004" e_stop="10858"/>
            <exon e_start="9900" e_stop="9404"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.996" acc_prob="0.991" e_score="0.992"/>
          <exon-intron don_prob="0.999" acc_prob="0.853" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.978" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.997" e_score="1.000"/>
          <exon-only e_score="0.987"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.992">
            <gDNA_exon_boundary e_start="13536" e_stop="13175" e_length="362"/>
          </exon>
          <intron i_serial="1" don_prob="0.996" acc_prob="0.991">
            <gDNA_intron_boundary i_start="13174" i_stop="13007" i_length="168"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="13006" e_stop="12946" e_length="61"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.853">
            <gDNA_intron_boundary i_start="12945" i_stop="11696" i_length="1250"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="11695" e_stop="11403" e_length="293"/>
          </exon>
          <intron i_serial="3" don_prob="0.999" acc_prob="0.978">
            <gDNA_intron_boundary i_start="11402" i_stop="11005" i_length="398"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="11004" e_stop="10858" e_length="147"/>
          </exon>
          <intron i_serial="4" don_prob="1.000" acc_prob="0.997">
            <gDNA_intron_boundary i_start="10857" i_stop="9901" i_length="957"/>
          </intron>
          <exon e_serial="5" e_score="0.987">
            <gDNA_exon_boundary e_start="9900" e_stop="9404" e_length="497"/>
          </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="13536" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11403"/>
              <exon start="11004" stop="10926"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E701598" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13480" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11475"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E418891" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13480" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11489"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E443053" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13457" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E724039" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13454" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11490"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E551214" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13449" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11415"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689044" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13448" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11489"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257683" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13445" stop="13207"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E264309" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13442" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9847"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E692985" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13438" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9867"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E612872" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13438" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11616"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E471538" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="13437" stop="13175"/>
              <exon start="13006" stop="12946"/>
              <exon start="11695" stop="11569"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298394" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11587" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9404"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E696825" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11562" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9455"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541487" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11467" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E738906" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11467" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740726" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="11467" stop="11403"/>
              <exon start="11004" stop="10858"/>
              <exon start="9900" stop="9433"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740787" 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>GTTCCACTCCTGATAGAGTTGGTTGAGATAAACTTTATTATCCTCAAGAAGCAAAAAACAGAAGAAAATTTTACCAAGAATGATTCATCTTATGCCCCTAAAAATTCAATCTTGATGCTTCCCAGTTTACTCTTCAGTAATTTGAATCATAAAAATATACCCTTTTTGTAGATAGAAGAAAAGAAATGCTAATGATACAGTCCACCATTTCACTTCCTCTTCAAAAATCTGTTCTTGTTCCAGCTAAAATTGCAACAAGTGGGAGTAAAAATGGTTGTTTTCTTGATTTAAATGGTCGGTGTGGTTCAAAATCAGCTTCTTATCACTTTCCAAGAAGACCCATTAAGGGAAATTCAATTCAG : CTGAAGATTTATGCCAGGAAATCAGAATCACTCCCAATTTTGCTTTCAGAGAAAGTTGATG : AATTGCCAGAGATGTTGCTGAATGGCGGAGATATTACCATTAGTAGTGGGGAGATTCTTTCTCTATCAGCTTTCTCATGTGGATCTATCTTCTGGTTGACATCTGGGCAAGTGGCATTAGCAAGTGAAGGTGTCAGAGTAAATATGGTTTATGAGGTCGGGGAATTATTTGAACTGGGAATCCAGCTTACTTACCTGCTTTTACTACTAGCATTGCTTGGGGTTGGAAGTTTCTTTGTGATTCGGCAAGTCCTTGTCCGCAGAGAGCTTGATCTTTCTGCCAAAGAATTGCAA : GAGCAAGTTAGAAGTGGTGATGCCAGTGCCACAGAGCTTTTTGAACTTGGAGCTGTGATGTTGAGGAGAAAATTCTACCCAGCTGCAACCAAATACCTTCTTCAGGCAGTAGAAAAGTGGGATGGAGATGATCAGGATCTTGCCCAA : GTTTACAATGCCCTTGGTGTCAGTTATGTACTTGATGGGAAAATTGACAAAGGAATTGCTCAGTTTGAAAATGCTGTAAAAGTTCAACCTGGTTATGTCACGGCATGGAACAACCTTGGCGATGCATATGAGAAAACCAAAGACTTAACATCTGCTCTAAATGCATTTGAAGAGGTACTTCTTTTTGATCCTAACAACAAAATAGCTCGTCCTAGGCGCGATGCATTGAAGGACAAAGTAACAATGTATAAAGGAGTATCAGTGAAATCTAAGAAGAGTTGATATAGCTAGCCCATTAGTTCTTTTACACACTTGTGCTGATTATCTTTTTGAGGAGCTCTTTTTGTTCTCTTTTTCCGCTTTCTCCTACACAAGTGGAATTCGTTGTCATGGCCATGTTGAAGTTTTGGATGTTCCATAATAGAAGTTGTTTGAACTTTCTGTTTTTGGTGTAAATGAAATGAACAGTGTCTATTCTACTTTATTTGCATAGAATC</gDNA_template>
            <first_frame> V  P  L  L  I  E  L  V  E  I  N  F  I  I  L  K  K  Q  K  T  E  E  N  F  T  K  N  D  S  S  Y  A  P  K  N  S  I  L  M  L  P  S  L  L  F  S  N  L  N  H  K  N  I  P  F  L  *  I  E  E  K  K  C  *  *  Y  S  P  P  F  H  F  L  F  K  N  L  F  L  F  Q  L  K  L  Q  Q  V  G  V  K  M  V  V  F  L  I  *  M  V  G  V  V  Q  N  Q  L  L  I  T  F  Q  E  D  P  L  R  E  I  Q  F  S :   *  R  F  M  P  G  N  Q  N  H  S  Q  F  C  F  Q  R  K  L  M  :  N  C  Q  R  C  C  *  M  A  E  I  L  P  L  V  V  G  R  F  F  L  Y  Q  L  S  H  V  D  L  S  S  G  *  H  L  G  K  W  H  *  Q  V  K  V  S  E  *  I  W  F  M  R  S  G  N  Y  L  N  W  E  S  S  L  L  T  C  F  Y  Y  *  H  C  L  G  L  E  V  S  L  *  F  G  K  S  L  S  A  E  S  L  I  F  L  P  K  N  C  K :   S  K  L  E  V  V  M  P  V  P  Q  S  F  L  N  L  E  L  *  C  *  G  E  N  S  T  Q  L  Q  P  N  T  F  F  R  Q  *  K  S  G  M  E  M  I  R  I  L  P  K :   F  T  M  P  L  V  S  V  M  Y  L  M  G  K  L  T  K  E  L  L  S  L  K  M  L  *  K  F  N  L  V  M  S  R  H  G  T  T  L  A  M  H  M  R  K  P  K  T  *  H  L  L  *  M  H  L  K  R  Y  F  F  L  I  L  T  T  K  *  L  V  L  G  A  M  H  *  R  T  K  *  Q  C  I  K  E  Y  Q  *  N  L  R  R  V  D  I  A  S  P  L  V  L  L  H  T  C  A  D  Y  L  F  E  E  L  F  L  F  S  F  S  A  F  S  Y  T  S  G  I  R  C  H  G  H  V  E  V  L  D  V  P  *  *  K  L  F  E  L  S  V  F  G  V  N  E  M  N  S  V  Y  S  T  L  F  A  *  N  </first_frame>
            <second_frame>  F  H  S  *  *  S  W  L  R  *  T  L  L  S  S  R  S  K  K  Q  K  K  I  L  P  R  M  I  H  L  M  P  L  K  I  Q  S  *  C  F  P  V  Y  S  S  V  I  *  I  I  K  I  Y  P  F  C  R  *  K  K  R  N  A  N  D  T  V  H  H  F  T  S  S  S  K  I  C  S  C  S  S  *  N  C  N  K  W  E  *  K  W  L  F  S  *  F  K  W  S  V  W  F  K  I  S  F  L  S  L  S  K  K  T  H  *  G  K  F  N  S   : A  E  D  L  C  Q  E  I  R  I  T  P  N  F  A  F  R  E  S  *  * :   I  A  R  D  V  A  E  W  R  R  Y  Y  H  *  *  W  G  D  S  F  S  I  S  F  L  M  W  I  Y  L  L  V  D  I  W  A  S  G  I  S  K  *  R  C  Q  S  K  Y  G  L  *  G  R  G  I  I  *  T  G  N  P  A  Y  L  P  A  F  T  T  S  I  A  W  G  W  K  F  L  C  D  S  A  S  P  C  P  Q  R  A  *  S  F  C  Q  R  I  A   : R  A  S  *  K  W  *  C  Q  C  H  R  A  F  *  T  W  S  C  D  V  E  E  K  I  L  P  S  C  N  Q  I  P  S  S  G  S  R  K  V  G  W  R  *  S  G  S  C  P   : S  L  Q  C  P  W  C  Q  L  C  T  *  W  E  N  *  Q  R  N  C  S  V  *  K  C  C  K  S  S  T  W  L  C  H  G  M  E  Q  P  W  R  C  I  *  E  N  Q  R  L  N  I  C  S  K  C  I  *  R  G  T  S  F  *  S  *  Q  Q  N  S  S  S  *  A  R  C  I  E  G  Q  S  N  N  V  *  R  S  I  S  E  I  *  E  E  L  I  *  L  A  H  *  F  F  Y  T  L  V  L  I  I  F  L  R  S  S  F  C  S  L  F  P  L  S  P  T  Q  V  E  F  V  V  M  A  M  L  K  F  W  M  F  H  N  R  S  C  L  N  F  L  F  L  V  *  M  K  *  T  V  S  I  L  L  Y  L  H  R  I </second_frame>
            <third_frame>   S  T  P  D  R  V  G  *  D  K  L  Y  Y  P  Q  E  A  K  N  R  R  K  F  Y  Q  E  *  F  I  L  C  P  *  K  F  N  L  D  A  S  Q  F  T  L  Q  *  F  E  S  *  K  Y  T  L  F  V  D  R  R  K  E  M  L  M  I  Q  S  T  I  S  L  P  L  Q  K  S  V  L  V  P  A  K  I  A  T  S  G  S  K  N  G  C  F  L  D  L  N  G  R  C  G  S  K  S  A  S  Y  H  F  P  R  R  P  I  K  G  N  S  I  Q  :  L  K  I  Y  A  R  K  S  E  S  L  P  I  L  L  S  E  K  V  D   : E  L  P  E  M  L  L  N  G  G  D  I  T  I  S  S  G  E  I  L  S  L  S  A  F  S  C  G  S  I  F  W  L  T  S  G  Q  V  A  L  A  S  E  G  V  R  V  N  M  V  Y  E  V  G  E  L  F  E  L  G  I  Q  L  T  Y  L  L  L  L  L  A  L  L  G  V  G  S  F  F  V  I  R  Q  V  L  V  R  R  E  L  D  L  S  A  K  E  L  Q  :  E  Q  V  R  S  G  D  A  S  A  T  E  L  F  E  L  G  A  V  M  L  R  R  K  F  Y  P  A  A  T  K  Y  L  L  Q  A  V  E  K  W  D  G  D  D  Q  D  L  A  Q  :  V  Y  N  A  L  G  V  S  Y  V  L  D  G  K  I  D  K  G  I  A  Q  F  E  N  A  V  K  V  Q  P  G  Y  V  T  A  W  N  N  L  G  D  A  Y  E  K  T  K  D  L  T  S  A  L  N  A  F  E  E  V  L  L  F  D  P  N  N  K  I  A  R  P  R  R  D  A  L  K  D  K  V  T  M  Y  K  G  V  S  V  K  S  K  K  S  *  Y  S  *  P  I  S  S  F  T  H  L  C  *  L  S  F  *  G  A  L  F  V  L  F  F  R  F  L  L  H  K  W  N  S  L  S  W  P  C  *  S  F  G  C  S  I  I  E  V  V  *  T  F  C  F  W  C  K  *  N  E  Q  C  L  F  Y  F  I  C  I  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="C00SLm0121I03.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="13384" stop="13175"/>
                    <exon start="13006" stop="12946"/>
                    <exon start="11695" stop="11403"/>
                    <exon start="11004" stop="10858"/>
                    <exon start="9900" stop="9619"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>990</number_coding_nucleotides>
                  <number_encoded_amino_acids>330</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KYTLFVDRRKEMLMIQSTISLPLQKSVLVPAKIATSGSKNGCFLDLNGRCGSKSASYHFPRRPIKGNSIQLKIYARKSESLPILLSEKVDELPEMLLNGGDITISSGEILSLSAFSCGSIFWLTSGQVALASEGVRVNMVYEVGELFELGIQLTYLLLLLALLGVGSFFVIRQVLVRRELDLSAKELQEQVRSGDASATELFELGAVMLRRKFYPAATKYLLQAVEKWDGDDQDLAQVYNALGVSYVLDGKIDKGIAQFENAVKVQPGYVTAWNNLGDAYEKTKDLTSALNAFEEVLLFDPNNKIARPRRDALKDKVTMYKGVSVKSKKS*</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="9456" PGL_stop="9907"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="9456" e_stop="9907"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.949"/>
        </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="0.949">
            <gDNA_exon_boundary e_start="9456" e_stop="9907" e_length="452"/>
          </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="9456" stop="9907"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297801" 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>AACAGAAAGTTCAAACAACTTCTATTATGGAACATCCAAAACTTCAACATGGCCATGACAACGAATTCCACTTGTGTAGGAGAAAGCGGAAAAAGAGAACAAAAAGAGCTCCTCAAAAAGATAATCAGCACAAGTGTGTAAAAGAACTAATGGGCTAGCTATATCAACTCTTCTTAGATTTCACTGATACTCCTTTATACATTGTTACTTTGTCCTTCAATGCATCGCGCCTAGGACGAGCTATTTTGTTGTTAGGATCAAAAAGAAGTACCTCTTCAAATGCATTTAGAGCAGATGTTAAGTCTTTGGTTTTCTCATATGCATCGCCAAGGTTGTTCCATGCCGTGACATAACCAGGTTGAACTTTTACAGCATTTTCAAACTGAGCAATTCCTTTGTCAATTTTCCCATCAAGTACATAACTGACACCAAGGGCATTGTAAACCTGTAAA</gDNA_template>
            <first_frame> N  R  K  F  K  Q  L  L  L  W  N  I  Q  N  F  N  M  A  M  T  T  N  S  T  C  V  G  E  S  G  K  R  E  Q  K  E  L  L  K  K  I  I  S  T  S  V  *  K  N  *  W  A  S  Y  I  N  S  S  *  I  S  L  I  L  L  Y  T  L  L  L  C  P  S  M  H  R  A  *  D  E  L  F  C  C  *  D  Q  K  E  V  P  L  Q  M  H  L  E  Q  M  L  S  L  W  F  S  H  M  H  R  Q  G  C  S  M  P  *  H  N  Q  V  E  L  L  Q  H  F  Q  T  E  Q  F  L  C  Q  F  S  H  Q  V  H  N  *  H  Q  G  H  C  K  P  V   </first_frame>
            <second_frame>  T  E  S  S  N  N  F  Y  Y  G  T  S  K  T  S  T  W  P  *  Q  R  I  P  L  V  *  E  K  A  E  K  E  N  K  K  S  S  S  K  R  *  S  A  Q  V  C  K  R  T  N  G  L  A  I  S  T  L  L  R  F  H  *  Y  S  F  I  H  C  Y  F  V  L  Q  C  I  A  P  R  T  S  Y  F  V  V  R  I  K  K  K  Y  L  F  K  C  I  *  S  R  C  *  V  F  G  F  L  I  C  I  A  K  V  V  P  C  R  D  I  T  R  L  N  F  Y  S  I  F  K  L  S  N  S  F  V  N  F  P  I  K  Y  I  T  D  T  K  G  I  V  N  L  *  </second_frame>
            <third_frame>   Q  K  V  Q  T  T  S  I  M  E  H  P  K  L  Q  H  G  H  D  N  E  F  H  L  C  R  R  K  R  K  K  R  T  K  R  A  P  Q  K  D  N  Q  H  K  C  V  K  E  L  M  G  *  L  Y  Q  L  F  L  D  F  T  D  T  P  L  Y  I  V  T  L  S  F  N  A  S  R  L  G  R  A  I  L  L  L  G  S  K  R  S  T  S  S  N  A  F  R  A  D  V  K  S  L  V  F  S  Y  A  S  P  R  L  F  H  A  V  T  *  P  G  *  T  F  T  A  F  S  N  *  A  I  P  L  S  I  F  P  S  S  T  *  L  T  P  R  A  L  *  T  C  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="C00SLm0121I03.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="9614" stop="9808"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>192</number_coding_nucleotides>
                  <number_encoded_amino_acids>64</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LYQLFLDFTDTPLYIVTLSFNASRLGRAILLLGSKRSTSSNAFRADVKSLVFSYASPRLFHAVT*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="31416" PGL_stop="26904"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="31416" e_stop="31322"/>
            <exon e_start="31019" e_stop="30849"/>
            <exon e_start="29943" e_stop="29709"/>
            <exon e_start="28468" e_stop="28246"/>
            <exon e_start="28132" e_stop="27968"/>
            <exon e_start="27245" e_stop="27095"/>
            <exon e_start="27018" e_stop="26904"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.889" acc_prob="1.000" e_score="0.979"/>
          <exon-intron don_prob="0.992" acc_prob="0.200" e_score="0.982"/>
          <exon-intron don_prob="0.976" acc_prob="0.993" e_score="0.970"/>
          <exon-intron don_prob="0.980" acc_prob="0.787" e_score="1.000"/>
          <exon-intron don_prob="0.984" acc_prob="0.943" e_score="1.000"/>
          <exon-intron don_prob="0.998" acc_prob="0.997" 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="0.979">
            <gDNA_exon_boundary e_start="31416" e_stop="31322" e_length="95"/>
          </exon>
          <intron i_serial="1" don_prob="0.889" acc_prob="1.000">
            <gDNA_intron_boundary i_start="31321" i_stop="31020" i_length="302"/>
          </intron>
          <exon e_serial="2" e_score="0.982">
            <gDNA_exon_boundary e_start="31019" e_stop="30849" e_length="171"/>
          </exon>
          <intron i_serial="2" don_prob="0.992" acc_prob="0.200">
            <gDNA_intron_boundary i_start="30848" i_stop="29944" i_length="905"/>
          </intron>
          <exon e_serial="3" e_score="0.970">
            <gDNA_exon_boundary e_start="29943" e_stop="29709" e_length="235"/>
          </exon>
          <intron i_serial="3" don_prob="0.976" acc_prob="0.993">
            <gDNA_intron_boundary i_start="29708" i_stop="28469" i_length="1240"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="28468" e_stop="28246" e_length="223"/>
          </exon>
          <intron i_serial="4" don_prob="0.980" acc_prob="0.787">
            <gDNA_intron_boundary i_start="28245" i_stop="28133" i_length="113"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="28132" e_stop="27968" e_length="165"/>
          </exon>
          <intron i_serial="5" don_prob="0.984" acc_prob="0.943">
            <gDNA_intron_boundary i_start="27967" i_stop="27246" i_length="722"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="27245" e_stop="27095" e_length="151"/>
          </exon>
          <intron i_serial="6" don_prob="0.998" acc_prob="0.997">
            <gDNA_intron_boundary i_start="27094" i_stop="27019" i_length="76"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="27018" e_stop="26904" e_length="115"/>
          </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="31416" stop="31322"/>
              <exon start="31019" stop="30849"/>
              <exon start="29943" stop="29709"/>
              <exon start="28468" stop="28391"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E437405" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="31416" stop="31322"/>
              <exon start="31019" stop="30849"/>
              <exon start="29943" stop="29709"/>
              <exon start="28468" stop="28429"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E415651" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29778" stop="29709"/>
              <exon start="28468" stop="28246"/>
              <exon start="28132" stop="27968"/>
              <exon start="27245" stop="27095"/>
              <exon start="27018" stop="26904"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257351" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29778" stop="29709"/>
              <exon start="28468" stop="28246"/>
              <exon start="28132" stop="27968"/>
              <exon start="27245" stop="27095"/>
              <exon start="27018" stop="26920"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E263681" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29778" stop="29709"/>
              <exon start="28468" stop="28246"/>
              <exon start="28132" stop="27968"/>
              <exon start="27245" stop="27193"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E259606" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29738" stop="29709"/>
              <exon start="28468" stop="28246"/>
              <exon start="28132" stop="28093"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E259488" 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>TTTGTTACAAAGGAAGTATTCCTTCTTTGCAATCTTTTGCTCATTGGATTTCCATTTTCTTCTCTCAAGTTAGCCTCACTGATCCTGTTATTGCT : GTTATTGATGGAGAAAGAGGTAATGAGTATAGAAGGCAGTTGTTACCTTCCTATAAAGCAAGTAGGAGGAAATACTGGCATCAGTTGCAAGGTGCAGTAAAATCTCCACGGAGTACGATTGAAAGGTCACATAGGCTCATCTTGGATGTTCTTCAGAGCTGCAATGTTCCT : GTAGTTAAGATTGAATCACATGAAGCAGATGATGTTATAGCCACACTTGTAGAACAGGTTCTACAAAGGGGGCACCGAGTTGTGGTTGCCTCTCCTGATAAAGACTTCAAACAACTGATATCTGATGATGTTCAAATTGTCATGCCAGTACCAGAGTTCAATAGATGGTCCTTTTACACCTTAAAACACTATGTGGCACAGTACAATTGTGATCCGAGATCTGATTTGAGCCTGA : GGTGCATACTGGGCGACGAGGTTGATGGTGTTCCTGGAATCCAGCATGTTGTTCCTGGTTTTGGTCGAAAGACTGCTTTGAAGCTTTTGAAAAAGCACGGTACACTGGAGAATTTACTTAATGCTGCTTCAGTAAGATCAGTGGGCAGGCAGTATGCACAAGATGCCCTTATCAAGTACGCTGATTATCTGCGCAGAAATTATGAAGTTCTCTCTCTGAAGAG : GGATGTCAGTATCCATATTGAGGAGCAATGGCTTAATGAGAGGGATGCGCGTAATGACTCACTTGTTTTATCCAACTTCGTCACTTCGCTGGAAGACAGTAGGAATCTTAATTTGGAAAAGAGATCGCATTCCATTGGTTGAAATTGCCAGAAGAAAGCATTTTT : TGTGTAAGTTATAATGTAAGCTCTACAACCTGAAGAACAAAGATCTTGATGCTTCAGCAGAAGTATCAAACTAAACCAATAGACGATTACCGAACTTAGCCAGAAGATTTGATCAGATGAACCGGACTGAATCAGAATATCCAAATTCACA : ATAGAAGCATACAGTAGAAAACTTAGCTATTATTCCTCTTGGACGAATCACTAAGGAAGAGACTTCTGAGGTCTAAAATGTACAGTAAGTTTGAGTTTCTTTTAGTAGTGCCTCT</gDNA_template>
            <first_frame> F  V  T  K  E  V  F  L  L  C  N  L  L  L  I  G  F  P  F  S  S  L  K  L  A  S  L  I  L  L  L  L :   L  L  M  E  K  E  V  M  S  I  E  G  S  C  Y  L  P  I  K  Q  V  G  G  N  T  G  I  S  C  K  V  Q  *  N  L  H  G  V  R  L  K  G  H  I  G  S  S  W  M  F  F  R  A  A  M  F  L :   *  L  R  L  N  H  M  K  Q  M  M  L  *  P  H  L  *  N  R  F  Y  K  G  G  T  E  L  W  L  P  L  L  I  K  T  S  N  N  *  Y  L  M  M  F  K  L  S  C  Q  Y  Q  S  S  I  D  G  P  F  T  P  *  N  T  M  W  H  S  T  I  V  I  R  D  L  I  *  A  *  :  G  A  Y  W  A  T  R  L  M  V  F  L  E  S  S  M  L  F  L  V  L  V  E  R  L  L  *  S  F  *  K  S  T  V  H  W  R  I  Y  L  M  L  L  Q  *  D  Q  W  A  G  S  M  H  K  M  P  L  S  S  T  L  I  I  C  A  E  I  M  K  F  S  L  *  R   : G  M  S  V  S  I  L  R  S  N  G  L  M  R  G  M  R  V  M  T  H  L  F  Y  P  T  S  S  L  R  W  K  T  V  G  I  L  I  W  K  R  D  R  I  P  L  V  E  I  A  R  R  K  H  F   : L  C  K  L  *  C  K  L  Y  N  L  K  N  K  D  L  D  A  S  A  E  V  S  N  *  T  N  R  R  L  P  N  L  A  R  R  F  D  Q  M  N  R  T  E  S  E  Y  P  N  S  Q :   *  K  H  T  V  E  N  L  A  I  I  P  L  G  R  I  T  K  E  E  T  S  E  V  *  N  V  Q  *  V  *  V  S  F  S  S  A  S </first_frame>
            <second_frame>  L  L  Q  R  K  Y  S  F  F  A  I  F  C  S  L  D  F  H  F  L  L  S  S  *  P  H  *  S  C  Y  C   : C  Y  *  W  R  K  R  *  *  V  *  K  A  V  V  T  F  L  *  S  K  *  E  E  I  L  A  S  V  A  R  C  S  K  I  S  T  E  Y  D  *  K  V  T  *  A  H  L  G  C  S  S  E  L  Q  C  S   : C  S  *  D  *  I  T  *  S  R  *  C  Y  S  H  T  C  R  T  G  S  T  K  G  A  P  S  C  G  C  L  S  *  *  R  L  Q  T  T  D  I  *  *  C  S  N  C  H  A  S  T  R  V  Q  *  M  V  L  L  H  L  K  T  L  C  G  T  V  Q  L  *  S  E  I  *  F  E  P  E :   V  H  T  G  R  R  G  *  W  C  S  W  N  P  A  C  C  S  W  F  W  S  K  D  C  F  E  A  F  E  K  A  R  Y  T  G  E  F  T  *  C  C  F  S  K  I  S  G  Q  A  V  C  T  R  C  P  Y  Q  V  R  *  L  S  A  Q  K  L  *  S  S  L  S  E  E  :  G  C  Q  Y  P  Y  *  G  A  M  A  *  *  E  G  C  A  *  *  L  T  C  F  I  Q  L  R  H  F  A  G  R  Q  *  E  S  *  F  G  K  E  I  A  F  H  W  L  K  L  P  E  E  S  I  F  :  C  V  S  Y  N  V  S  S  T  T  *  R  T  K  I  L  M  L  Q  Q  K  Y  Q  T  K  P  I  D  D  Y  R  T  *  P  E  D  L  I  R  *  T  G  L  N  Q  N  I  Q  I  H   : N  R  S  I  Q  *  K  T  *  L  L  F  L  L  D  E  S  L  R  K  R  L  L  R  S  K  M  Y  S  K  F  E  F  L  L  V  V  P   </second_frame>
            <third_frame>   C  Y  K  G  S  I  P  S  L  Q  S  F  A  H  W  I  S  I  F  F  S  Q  V  S  L  T  D  P  V  I  A  :  V  I  D  G  E  R  G  N  E  Y  R  R  Q  L  L  P  S  Y  K  A  S  R  R  K  Y  W  H  Q  L  Q  G  A  V  K  S  P  R  S  T  I  E  R  S  H  R  L  I  L  D  V  L  Q  S  C  N  V  P  :  V  V  K  I  E  S  H  E  A  D  D  V  I  A  T  L  V  E  Q  V  L  Q  R  G  H  R  V  V  V  A  S  P  D  K  D  F  K  Q  L  I  S  D  D  V  Q  I  V  M  P  V  P  E  F  N  R  W  S  F  Y  T  L  K  H  Y  V  A  Q  Y  N  C  D  P  R  S  D  L  S  L   : R  C  I  L  G  D  E  V  D  G  V  P  G  I  Q  H  V  V  P  G  F  G  R  K  T  A  L  K  L  L  K  K  H  G  T  L  E  N  L  L  N  A  A  S  V  R  S  V  G  R  Q  Y  A  Q  D  A  L  I  K  Y  A  D  Y  L  R  R  N  Y  E  V  L  S  L  K  R :   D  V  S  I  H  I  E  E  Q  W  L  N  E  R  D  A  R  N  D  S  L  V  L  S  N  F  V  T  S  L  E  D  S  R  N  L  N  L  E  K  R  S  H  S  I  G  *  N  C  Q  K  K  A  F  F :   V  *  V  I  M  *  A  L  Q  P  E  E  Q  R  S  *  C  F  S  R  S  I  K  L  N  Q  *  T  I  T  E  L  S  Q  K  I  *  S  D  E  P  D  *  I  R  I  S  K  F  T  :  I  E  A  Y  S  R  K  L  S  Y  Y  S  S  W  T  N  H  *  G  R  D  F  *  G  L  K  C  T  V  S  L  S  F  F  *  *  C  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="C00SLm0121I03.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="31414" stop="31322"/>
                    <exon start="31019" stop="30849"/>
                    <exon start="29943" stop="29709"/>
                    <exon start="28468" stop="28246"/>
                    <exon start="28132" stop="27991"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>861</number_coding_nucleotides>
                  <number_encoded_amino_acids>287</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CYKGSIPSLQSFAHWISIFFSQVSLTDPVIAVIDGERGNEYRRQLLPSYKASRRKYWHQLQGAVKSPRSTIERSHRLILDVLQSCNVPVVKIESHEADDVIATLVEQVLQRGHRVVVASPDKDFKQLISDDVQIVMPVPEFNRWSFYTLKHYVAQYNCDPRSDLSLRCILGDEVDGVPGIQHVVPGFGRKTALKLLKKHGTLENLLNAASVRSVGRQYAQDALIKYADYLRRNYEVLSLKRDVSIHIEEQWLNERDARNDSLVLSNFVTSLEDSRNLNLEKRSHSIG*</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="35857" PGL_stop="32362"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="35857" e_stop="35559"/>
            <exon e_start="33835" e_stop="33749"/>
            <exon e_start="33618" e_stop="33472"/>
            <exon e_start="32931" e_stop="32839"/>
            <exon e_start="32748" e_stop="32362"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="0.990"/>
          <exon-intron don_prob="0.998" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.990" e_score="1.000"/>
          <exon-intron don_prob="0.973" acc_prob="1.000" e_score="1.000"/>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.990">
            <gDNA_exon_boundary e_start="35857" e_stop="35559" e_length="299"/>
          </exon>
          <intron i_serial="1" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="35558" i_stop="33836" i_length="1723"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="33835" e_stop="33749" e_length="87"/>
          </exon>
          <intron i_serial="2" don_prob="0.998" acc_prob="0.998">
            <gDNA_intron_boundary i_start="33748" i_stop="33619" i_length="130"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="33618" e_stop="33472" e_length="147"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.990">
            <gDNA_intron_boundary i_start="33471" i_stop="32932" i_length="540"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="32931" e_stop="32839" e_length="93"/>
          </exon>
          <intron i_serial="4" don_prob="0.973" acc_prob="1.000">
            <gDNA_intron_boundary i_start="32838" i_stop="32749" i_length="90"/>
          </intron>
          <exon e_serial="5" e_score="0.995">
            <gDNA_exon_boundary e_start="32748" e_stop="32362" e_length="387"/>
          </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="35857" stop="35559"/>
              <exon start="33835" stop="33749"/>
              <exon start="33618" stop="33516"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239772" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35852" stop="35559"/>
              <exon start="33835" stop="33749"/>
              <exon start="33618" stop="33472"/>
              <exon start="32931" stop="32839"/>
              <exon start="32748" stop="32674"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E574625" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35845" stop="35559"/>
              <exon start="33835" stop="33749"/>
              <exon start="33618" stop="33472"/>
              <exon start="32931" stop="32839"/>
              <exon start="32748" stop="32362"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E745011" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35840" stop="35559"/>
              <exon start="33835" stop="33749"/>
              <exon start="33618" stop="33505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238180" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35783" stop="35559"/>
              <exon start="33835" stop="33749"/>
              <exon start="33618" stop="33472"/>
              <exon start="32931" stop="32899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E280404" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="35783" stop="35602"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E370508" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="33525" stop="33472"/>
              <exon start="32931" stop="32839"/>
              <exon start="32748" stop="32496"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246317" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="32915" stop="32839"/>
              <exon start="32748" stop="32382"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E283992" 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>TTCTTTCTCTCATTTTTTTCCATCCTCTCCCCACAAAAAATCTTTTTCACAATTTTGTCAATCAAAAAAAAAAAAAAGAAAAGAAAAAAATGGCTTGTGGTGATGATGATAAATTGTGTCTTGATTCAATAAGAAAGAGTTTAATTAGACAAGAAGATACCATTATTTTCAACCTTATTGAAAGAATCAAATTCCCAATAAATCCAACTTTATACAAACAACAATTACCTCCTCCTTCCAATTTTTCAGGATCCTTATTTCAATACTTGTTTCAAGAAACAGAATCCCTTCAATCCAAG : GTTGGTAGATATTTGGCCCCAGAGGAAAATCCTTTCTTCCCAGATAATTTGTCTGACTCAATCATACCACTTACCAAATGCACACCA : GTTTTGCATCCTGCAGCAGAATCAGTAAATGTAAATGAGAAAATATTGGATATTTATATAAATCAGATGCTTCCACTATTTTGTACTGAGGTTAATGATGATGCAAACTTTGCAACTACTGCTGCTTGTGACATTCAGCTCTTGCAG : GCACTATCTAGAAGGATTCACTATGGAAAATTTGTTGCTGAAGTTAAATTTAGAGATAGTATTGATGAATATAAACCATTTATTCTTGCTCAG : GATAGAGATGCTTTAATGAAGTTATTAACATTTGAAGCGGTTGAAGAGATGGTGAAGAAGAGAGTAGCGAAGAAAGCTAAAGTGTTTGGTCAAGAAGTGAGCTTAAACGATAACGCTGAAGAAGTGAAGGGCAAAATTGATCCATTGTTAGTTTCACGTTTATATGATGAATGGGTTATGCCTTTGACTAAACTTGTCGAAGTTGAATACCTCCTGCGTCGTCTTGATTAATTGAGCTTATTATTATTATTGTAATGATTTTCGTCACCATTATTATCATTTGTTATTGTTATCGATCGACATTTATGCAGATGAAAATGACGATTCATGACATTTGTGAATTGCCAAAAAGTTGAGCTAATTGTCATTCTTTAGTTATGGATATGA</gDNA_template>
            <first_frame> F  F  L  S  F  F  S  I  L  S  P  Q  K  I  F  F  T  I  L  S  I  K  K  K  K  K  K  R  K  K  W  L  V  V  M  M  I  N  C  V  L  I  Q  *  E  R  V  *  L  D  K  K  I  P  L  F  S  T  L  L  K  E  S  N  S  Q  *  I  Q  L  Y  T  N  N  N  Y  L  L  L  P  I  F  Q  D  P  Y  F  N  T  C  F  K  K  Q  N  P  F  N  P  R :   L  V  D  I  W  P  Q  R  K  I  L  S  S  Q  I  I  C  L  T  Q  S  Y  H  L  P  N  A  H  Q :   F  C  I  L  Q  Q  N  Q  *  M  *  M  R  K  Y  W  I  F  I  *  I  R  C  F  H  Y  F  V  L  R  L  M  M  M  Q  T  L  Q  L  L  L  L  V  T  F  S  S  C  R :   H  Y  L  E  G  F  T  M  E  N  L  L  L  K  L  N  L  E  I  V  L  M  N  I  N  H  L  F  L  L  R :   I  E  M  L  *  *  S  Y  *  H  L  K  R  L  K  R  W  *  R  R  E  *  R  R  K  L  K  C  L  V  K  K  *  A  *  T  I  T  L  K  K  *  R  A  K  L  I  H  C  *  F  H  V  Y  M  M  N  G  L  C  L  *  L  N  L  S  K  L  N  T  S  C  V  V  L  I  N  *  A  Y  Y  Y  Y  C  N  D  F  R  H  H  Y  Y  H  L  L  L  L  S  I  D  I  Y  A  D  E  N  D  D  S  *  H  L  *  I  A  K  K  L  S  *  L  S  F  F  S  Y  G  Y   </first_frame>
            <second_frame>  S  F  S  H  F  F  P  S  S  P  H  K  K  S  F  S  Q  F  C  Q  S  K  K  K  K  R  K  E  K  N  G  L  W  *  *  *  *  I  V  S  *  F  N  K  K  E  F  N  *  T  R  R  Y  H  Y  F  Q  P  Y  *  K  N  Q  I  P  N  K  S  N  F  I  Q  T  T  I  T  S  S  F  Q  F  F  R  I  L  I  S  I  L  V  S  R  N  R  I  P  S  I  Q   : G  W  *  I  F  G  P  R  G  K  S  F  L  P  R  *  F  V  *  L  N  H  T  T  Y  Q  M  H  T   : S  F  A  S  C  S  R  I  S  K  C  K  *  E  N  I  G  Y  L  Y  K  S  D  A  S  T  I  L  Y  *  G  *  *  *  C  K  L  C  N  Y  C  C  L  *  H  S  A  L  A   : G  T  I  *  K  D  S  L  W  K  I  C  C  *  S  *  I  *  R  *  Y  *  *  I  *  T  I  Y  S  C  S   : G  *  R  C  F  N  E  V  I  N  I  *  S  G  *  R  D  G  E  E  E  S  S  E  E  S  *  S  V  W  S  R  S  E  L  K  R  *  R  *  R  S  E  G  Q  N  *  S  I  V  S  F  T  F  I  *  *  M  G  Y  A  F  D  *  T  C  R  S  *  I  P  P  A  S  S  *  L  I  E  L  I  I  I  I  V  M  I  F  V  T  I  I  I  I  C  Y  C  Y  R  S  T  F  M  Q  M  K  M  T  I  H  D  I  C  E  L  P  K  S  *  A  N  C  H  S  L  V  M  D  M  </second_frame>
            <third_frame>   L  S  L  I  F  F  H  P  L  P  T  K  N  L  F  H  N  F  V  N  Q  K  K  K  K  E  K  K  K  M  A  C  G  D  D  D  K  L  C  L  D  S  I  R  K  S  L  I  R  Q  E  D  T  I  I  F  N  L  I  E  R  I  K  F  P  I  N  P  T  L  Y  K  Q  Q  L  P  P  P  S  N  F  S  G  S  L  F  Q  Y  L  F  Q  E  T  E  S  L  Q  S  K  :  V  G  R  Y  L  A  P  E  E  N  P  F  F  P  D  N  L  S  D  S  I  I  P  L  T  K  C  T  P  :  V  L  H  P  A  A  E  S  V  N  V  N  E  K  I  L  D  I  Y  I  N  Q  M  L  P  L  F  C  T  E  V  N  D  D  A  N  F  A  T  T  A  A  C  D  I  Q  L  L  Q  :  A  L  S  R  R  I  H  Y  G  K  F  V  A  E  V  K  F  R  D  S  I  D  E  Y  K  P  F  I  L  A  Q  :  D  R  D  A  L  M  K  L  L  T  F  E  A  V  E  E  M  V  K  K  R  V  A  K  K  A  K  V  F  G  Q  E  V  S  L  N  D  N  A  E  E  V  K  G  K  I  D  P  L  L  V  S  R  L  Y  D  E  W  V  M  P  L  T  K  L  V  E  V  E  Y  L  L  R  R  L  D  *  L  S  L  L  L  L  L  *  *  F  S  S  P  L  L  S  F  V  I  V  I  D  R  H  L  C  R  *  K  *  R  F  M  T  F  V  N  C  Q  K  V  E  L  I  V  I  L  *  L  W  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="C00SLm0121I03.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="35855" stop="35559"/>
                    <exon start="33835" stop="33749"/>
                    <exon start="33618" stop="33472"/>
                    <exon start="32931" stop="32839"/>
                    <exon start="32748" stop="32518"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>852</number_coding_nucleotides>
                  <number_encoded_amino_acids>284</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LSLIFFHPLPTKNLFHNFVNQKKKKEKKKMACGDDDKLCLDSIRKSLIRQEDTIIFNLIERIKFPINPTLYKQQLPPPSNFSGSLFQYLFQETESLQSKVGRYLAPEENPFFPDNLSDSIIPLTKCTPVLHPAAESVNVNEKILDIYINQMLPLFCTEVNDDANFATTAACDIQLLQALSRRIHYGKFVAEVKFRDSIDEYKPFILAQDRDALMKLLTFEAVEEMVKKRVAKKAKVFGQEVSLNDNAEEVKGKIDPLLVSRLYDEWVMPLTKLVEVEYLLRRLD*</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="38263" PGL_stop="38045"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="38263" e_stop="38045"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.904"/>
        </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="0.904">
            <gDNA_exon_boundary e_start="38263" e_stop="38045" e_length="219"/>
          </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="38263" stop="38045"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298638" 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>TCAGTACTCCGGATTTCAGGGTGAGCTAATGCTTCTAGCTTGGACTGGATCTTCCTCTTCATGTCTTGATACCTTGAAGTTCCGGCATGAACTAGCTTTTTATGTATTTAAGCTTCTTAGATACTCTTAGATTAGTAATTTGAGGATAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAGTTATTGAA</gDNA_template>
            <first_frame> S  V  L  R  I  S  G  *  A  N  A  S  S  L  D  W  I  F  L  F  M  S  *  Y  L  E  V  P  A  *  T  S  F  L  C  I  *  A  S  *  I  L  L  D  *  *  F  E  D  R  C  S  C  D  D  D  F  Q  I  L  G  I  I  I  V  V  E  F  L  E  V  I  E </first_frame>
            <second_frame>  Q  Y  S  G  F  Q  G  E  L  M  L  L  A  W  T  G  S  S  S  S  C  L  D  T  L  K  F  R  H  E  L  A  F  Y  V  F  K  L  L  R  Y  S  *  I  S  N  L  R  I  D  V  L  V  M  M  T  S  R  F  W  G  *  *  *  L  L  S  F  *  K  L  L   </second_frame>
            <third_frame>   S  T  P  D  F  R  V  S  *  C  F  *  L  G  L  D  L  P  L  H  V  L  I  P  *  S  S  G  M  N  *  L  F  M  Y  L  S  F  L  D  T  L  R  L  V  I  *  G  *  M  F  L  *  *  *  L  P  D  F  G  D  N  N  S  C  *  V  F  R  S  Y  *  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C00SLm0121I03.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="40333" PGL_stop="40509"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="40333" e_stop="40509"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.932"/>
        </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="0.932">
            <gDNA_exon_boundary e_start="40333" e_stop="40509" e_length="177"/>
          </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="40333" stop="40509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577888" 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>CTACATCTCCTACCATACAATGCTTCAAATGGGGCCATGTCAATACTTGAGTGATAGCTATTATTGTATGAAAACTCCGCTAAGGGTAAGAAGTTATCCCAATGACCACCAAATTCTATCACACAAGCACGAAGTATATCCTCCAACACTTGAATCGTTCGCTCAGATTGACCACCG</gDNA_template>
            <first_frame> L  H  L  L  P  Y  N  A  S  N  G  A  M  S  I  L  E  *  *  L  L  L  Y  E  N  S  A  K  G  K  K  L  S  Q  *  P  P  N  S  I  T  Q  A  R  S  I  S  S  N  T  *  I  V  R  S  D  *  P  P </first_frame>
            <second_frame>  Y  I  S  Y  H  T  M  L  Q  M  G  P  C  Q  Y  L  S  D  S  Y  Y  C  M  K  T  P  L  R  V  R  S  Y  P  N  D  H  Q  I  L  S  H  K  H  E  V  Y  P  P  T  L  E  S  F  A  Q  I  D  H   </second_frame>
            <third_frame>   T  S  P  T  I  Q  C  F  K  W  G  H  V  N  T  *  V  I  A  I  I  V  *  K  L  R  *  G  *  E  V  I  P  M  T  T  K  F  Y  H  T  S  T  K  Y  I  L  Q  H  L  N  R  S  L  R  L  T  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/">
            <none gDNA_id="C00SLm0121I03.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 117 chains have been computed
$ 
$ memory statistics:
$ 76832 bytes spliced alignments in total
$ 34 spliced alignments have been stored
$ 2259 bytes was the average size of a spliced alignment
$ 11984 bytes predicted gene locations in total
$ 6 predicted gene locations have been stored
$ 1997 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 127 backtrace matrices have been allocated
$ 
$ date finished: 2009-12-01 06:37:12
-->
