<?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="2009-02-20 08:34:25"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E317991" ref_strand="+" ref_description="SGN-E317991 [cTOA-30-L11]">
      <seq>acaagtaattttggaagttgattttgattgtttgtaaatgagttccttctttgttgttgttttgttgctgtatgaatataaggaggagtgctttcagctaatgaattttttaattttattttttgctgtaaaaaaaaaaagagtaactttnggaaaatggatgtttacttaaggtgagaagagttttaagcttatgaactgattttgcttgttgaaaaatgaaagagaagaaataaatttggaaattgaattttagttaaggagaagattttcagcttatgaaacggatttttagtgaaggagaggaatttatttgtcaaatacattgatagccttaaaaagagcagaactttcgtatctctaacggtggaaataatcttaccttaatccaaactatgatgatttcaatttaaagaaacaaattctgtgttctatttttgatttactcattttaaggaagcatcctctctagttgtttacagctaaaattctgtaactgatgctatagcttaaagatgtagctttggatgaagtttgcattagcgatgatcatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="4993" stop="6146"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5293" g_stop="5846" g_length="554"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="555" r_length="555" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E317991" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>554</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E317991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5293" e_stop="5846"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTT-GGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATAT</genome_strand>
        <mrna_strand>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTNGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGCTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E317878" ref_strand="+" ref_description="SGN-E317878 [cTOA-30-L12]">
      <seq>ttgtggaagttgattttgattgtttgtaaatgagttccttctttgttgttgttttgttgctgtatgaatataaggaggagtgctttcagctaatgaattttttaattttattttttgctgtaaaaaaaaaaagagtaactttggaaaatggatgtttacttaaggtgagaagagttttaagcttatgaactgattttgcttgttgaaaaatgaaagagaagaaataaatttggaaattgaattttagttaaggagaagattttcagcttatgaaacggatttttagtgaaggagaggaatttatttgtcaaatacattgatagccttaaaaagagcagaactttcgtatctctagcggtggaaataatcttaccttaatccaaactatgatgatttcactttaaagaaacaaattctgtgttctatttttgatttactcattttaaggaagcatcctctctagttgtttacagctaaaattctgtaactgatgctatagcttaaagatgtagctttggatgaagtttgcattagcgatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="5002" stop="6140"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5301" g_stop="5840" g_length="540"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="540" r_length="540" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E317878" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>540</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E317878" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5301" e_stop="5840"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGA</genome_strand>
        <mrna_strand>TTGTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGCTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAGCGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCACTTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E214143" ref_strand="+" ref_description="SGN-E214143 [cLEC-80-N10]">
      <seq>caaatacattgatagccttaaaaagagcagaactttcgtatctctaacggtggaaataatcttaccttaatccaaactatgatgatttcaatttaaagaaacaaattctgtgttctatttttgatttactcattttaaggaagcatcctctctagttgtttacagctaaaattctgtaactgatgctatagcttaaagatgtagctttggatgaagtttgcattagcgatgatcatatagtgccacatcctagttgtgaacatgccaatgaagtttctctcccagactgatagccgtaagaaaccccggtgtgaaataattggtttattaagaaccataggagcaatcttctcttaaatataataatcagcaaaagggcaaagaagttcctcctttatatagtacaatgatggagaaggactcgagggctggtaggcttgattgcgtgttcccttctaaacatgataaggactctgttgaagaagtttcaagtttatcatctgaaaatactaggacatcaaatgattgctccagaagtaacaatatagactccattagcggtgaggtccagcccaataaccccattctggatgacaagaattctgcagttagggacaacttgcatagctatcctcttggtcccgtttctcaggcagatgatgatcttggttttcttgatagtaatcatgaggataaaagtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="5309" stop="6610"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5609" g_stop="6310" g_length="702"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="702" r_length="702" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E214143" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>702</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E214143" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5609" e_stop="6310"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAG</genome_strand>
        <mrna_strand>CAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E335551" ref_strand="+" ref_description="SGN-E335551 [cTOE-2-J9]">
      <seq>tctcgagtttttttttttttttactcattttaaggaagcatcctctctagttgtttacagctaaaattctgtaactgatgctatagcttaaagatgtagctttggatgaagtttgcattagcgatgatcatatagtgccacatcctagttgtgaacatgccaatgaagtttctctcccagactgatagccgtaagaaaccccggtgtgaaataattggtttattaagaaccataggagcaatcttctcttaaatataataatcagcaaaagggcaaagaagttcctcctttatatagtacaatgatggagaaggactcgagggctggtaggcttgattgcgtgttcccttctaaacatgataaggactctgttgaagaagtttcaagtttatcatctgaaaatactaggacatcaaatgattgctccagaagtaacaatatagactccattagcggtgaggtccagcccaataaccccattctggatgacaagaattctgcagttagggacaacttgcatagctatcctcttggtcccgtttctcaggcagatgatgatctttggttttcttgatagtaatcatgaggataaaaagtagtaccgagctcttatattataactggcctgagatggaaaactttgaggatgttgacaggatgttcngaaagttgtgattcaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="5415" stop="6692"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="5715" g_stop="6376" g_length="662"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="666" r_length="666" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100">
            <donor d_prob="0.991" d_score="0.94"/>
            <acceptor a_prob="0.894" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6477" g_stop="6491" g_length="15"/>
          <reference_exon_boundary r_type="cDNA" r_start="667" r_stop="681" r_length="15" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E335551" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E335551" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="5715" e_stop="6376"/>
          <exon e_start="6477" e_stop="6491"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCT-GTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATC-TTGGTTTTCTTGATAGTAATCATGAGGAT-AAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG-GTAATTGTTGTCTCTAGTGTTTTTCATGTGATTTTCTTTTTTTATTCAGAGGAGACTGACTAATACTTTATGATTGCTCACTGTTTATAATATCTTCCAGAAGTTGTGATTCAAC</genome_strand>
        <mrna_strand>TCTCGAGTTTTTTTTTTTTTTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTTGGTTTTCTTGATAGTAATCATGAGGATAAAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCNGA....................................................................................................AAGTTGTGATTCAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E200964" ref_strand="+" ref_description="SGN-E200964 [cLEC-5-G15]">
      <seq>ttatattataactggcctgagatggaaaactttgaggatgttgacaggatgttcggaagttgtgattcaacatttggagttggagctagtatcgaagatgaccttggttggttttcgtcatctggtgttattgaaggatctggaggtggattgaggtcagatttggagtttgccttctcaacatccagtgcacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6021" stop="9275"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6321" g_stop="6376" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.894" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6477" g_stop="6813" g_length="337"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="393" r_length="337" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="8875" g_stop="8975" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="494" r_length="101" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E200964" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>494</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E200964" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6321" e_stop="6376"/>
          <exon e_start="6477" e_stop="6813"/>
          <exon e_start="8875" e_stop="8975"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGGGTAATTGTTGTCTCTAGTGTTTTTCATGTGATTTTCTTTTTTTATTCAGAGGAGACTGACTAATACTTTATGATTGCTCACTGTTTATAATATCTTCCAGAAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAG</genome_strand>
        <mrna_strand>TTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG....................................................................................................AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E252288" ref_strand="+" ref_description="SGN-E252288 [cLEG-12-H9]">
      <seq>actttgaggatgttgacaggatgttcggaagttgtgattcaacatttggagttggagctagtatcgaagatgaccttggttggttttcgtcatctggtgttattgaaggatctggaggtggattgaggtcagatttggagtttgccttctcaacatccagtgcacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtattcagcagcacaagcaagttgatggatctgattttgggtattttcaggatggcttttcttacttatcttcagattacagtcattcagatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6049" stop="9430"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6349" g_stop="6376" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100">
            <donor d_prob="0.991" d_score="0.00"/>
            <acceptor a_prob="0.894" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="6477" g_stop="6813" g_length="337"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="365" r_length="337" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="8875" g_stop="9130" g_length="256"/>
          <reference_exon_boundary r_type="cDNA" r_start="366" r_stop="621" r_length="256" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E252288" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E252288" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6349" e_stop="6376"/>
          <exon e_start="6477" e_stop="6813"/>
          <exon e_start="8875" e_stop="9130"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTTTGAGGATGTTGACAGGATGTTCGGGTAATTGTTGTCTCTAGTGTTTTTCATGTGATTTTCTTTTTTTATTCAGAGGAGACTGACTAATACTTTATGATTGCTCACTGTTTATAATATCTTCCAGAAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATC</genome_strand>
        <mrna_strand>ACTTTGAGGATGTTGACAGGATGTTCGG....................................................................................................AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E261699" ref_strand="+" ref_description="SGN-E261699 [cLEG-61-B5]">
      <seq>ctggaggtggattgaggtcagatttggagtttgccttctcaacatccagtgcacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaattccagcagaagtaggttcctctattgtaaaggagagctcttgcacaagttctgggttgaatgaaatttctgaggaggcagatagttttcatcagcttgaacatgtcatggaacggttggatgtaagaacaaagctacggataagggaatagcttgtatcggnttggctcagagtgctgaacaaaggcttagacatgctaatctcaataatggatctggtgatgatagtcacacaagcagagcatttgatgatgatggagcatacagatgcacagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6260" stop="10893"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6560" g_stop="6813" g_length="254"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="254" r_length="254" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9037" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="417" r_length="163" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224">
            <donor d_prob="0.374" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9480" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="636" r_length="219" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="10443" g_stop="10591" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="637" r_stop="787" r_length="151" r_score="0.973"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278">
            <donor d_prob="0.986" d_score="1.00"/>
            <acceptor a_prob="0.997" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="10870" g_stop="10879" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="788" r_stop="797" r_length="10" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E261699" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261699" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6560" e_stop="6813"/>
          <exon e_start="8875" e_stop="9037"/>
          <exon e_start="9262" e_stop="9480"/>
          <exon e_start="10443" e_stop="10591"/>
          <exon e_start="10870" e_stop="10879"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACCTTATTTGTGTAGGTCAATAGCTCAAACGACATGTGCAATGCTTTTAGATGGTTCTCAGCTGGATTAAGATAGTTTTTTAGTCGAGGGACAATATTAATGACAAACATATTATACAAATTCCTATATTCTGGGAAGGTTAATGATGTGCAGCTACACACTCTTGTAGCTTCACGCAGTCATAGAGAACTATTCTATTTTGTCAGGAAGTTGTCACACAGCATGCTGTAGCATTGTGCATACATCTGACTTTTTCTAACCATTCTAAATTAGAGATCTTTGTTATTTAATTGAGACATGTGAAGATGCTGAGTAAATAGGAACTCATTTGGTCCTCTTATTCATTATTTATATTTATACAGATCACATATTAAATTATTTTTTGTGTTAGAATAATTCATATTAGTGATGGCGTTTTACTAAGACTTATTTAGAAAAATCTTTGTTCATGTATATCTATAGTAACCTATATCATACTATTGCCTATAGCTACAGAATATAGATATAGAAAAGAGTATTTGTCTCTTAGTGCATGTTTGTGTTGCAGATAGCAATGCAGAGAGCTGATTGCTTATTTAGTACAACAGACAGCCTTAATATAAAAGCTGTTCCTCATCATCTTGCTGCTTGCTTATTTTAAATTATTAATCAGCGGATGTGCAAAAGCCTTCCAAAGTCTGACTTATCGTTGAGTGTCTTGAAACTATCTTTGTGTTAATCCTGTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTGGTATGTGGTTCTTCAAGTTTATACATTTAGTTGGAAATCAACTTTCTTTTCAGTACATGCATGTTTGTTAGCTCACTCTGTTGAGCCTTCTGGTTTAGTTGGATGTAAGAACAAAGCTACGGATAAGGG-ATAGCTTGTATCGG-TTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAGGTTGGTATCGTTTCTTGATGCCTTGGTCTACATGCATACTTCCCATATAGGCCGTATCATAGTTTGCATACTTCAAGCACACGGTATGTTTGGTTTAGTTAGTGAAGATCTTATGAAGCACATTTCTCACCCTTCGAGTTTGGAAAGTAAGTAGGTCTAGTCAGTCACACCTTGAATAAGCACTTTTCTTTTCTTGATACCAGTAATCATACTGGTAATGTGATAGATTCTGTTGGCTTCCTTTCTGTGGTCTTAACATCTATTGGCTTGTTTTTCAGATGCACAGGA</genome_strand>
        <mrna_strand>CTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG................................................................................................................................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGATGTAAGAACAAAGCTACGGATAAGGGAATAGCTTGTATCGGNTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG......................................................................................................................................................................................................................................................................................ATGCACAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E369679" ref_strand="+" ref_description="SGN-E369679 [TUS-25-N18]">
      <seq>ctggaggtggattgaggtcagatttggagtttgccttctcaacatccagtgcacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaattccagcagaagtaggttcctctattgtaaaggagagctcttgcacaagttctgggttgaatgaaatttctgaggaggcagatagttttcatcagcttgaacatgtcatggaacggttggatgtaagaacaaagctacggataagggatagcttgtatcggttggctcagagtgctgaacaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6260" stop="10809"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6560" g_stop="6813" g_length="254"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="254" r_length="254" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9037" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="417" r_length="163" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224">
            <donor d_prob="0.374" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9480" g_length="219"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="636" r_length="219" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="10443" g_stop="10509" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="637" r_stop="703" r_length="67" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E369679" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>703</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E369679" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6560" e_stop="6813"/>
          <exon e_start="8875" e_stop="9037"/>
          <exon e_start="9262" e_stop="9480"/>
          <exon e_start="10443" e_stop="10509"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACCTTATTTGTGTAGGTCAATAGCTCAAACGACATGTGCAATGCTTTTAGATGGTTCTCAGCTGGATTAAGATAGTTTTTTAGTCGAGGGACAATATTAATGACAAACATATTATACAAATTCCTATATTCTGGGAAGGTTAATGATGTGCAGCTACACACTCTTGTAGCTTCACGCAGTCATAGAGAACTATTCTATTTTGTCAGGAAGTTGTCACACAGCATGCTGTAGCATTGTGCATACATCTGACTTTTTCTAACCATTCTAAATTAGAGATCTTTGTTATTTAATTGAGACATGTGAAGATGCTGAGTAAATAGGAACTCATTTGGTCCTCTTATTCATTATTTATATTTATACAGATCACATATTAAATTATTTTTTGTGTTAGAATAATTCATATTAGTGATGGCGTTTTACTAAGACTTATTTAGAAAAATCTTTGTTCATGTATATCTATAGTAACCTATATCATACTATTGCCTATAGCTACAGAATATAGATATAGAAAAGAGTATTTGTCTCTTAGTGCATGTTTGTGTTGCAGATAGCAATGCAGAGAGCTGATTGCTTATTTAGTACAACAGACAGCCTTAATATAAAAGCTGTTCCTCATCATCTTGCTGCTTGCTTATTTTAAATTATTAATCAGCGGATGTGCAAAAGCCTTCCAAAGTCTGACTTATCGTTGAGTGTCTTGAAACTATCTTTGTGTTAATCCTGTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTGGTATGTGGTTCTTCAAGTTTATACATTTAGTTGGAAATCAACTTTCTTTTCAGTACATGCATGTTTGTTAGCTCACTCTGTTGAGCCTTCTGGTTTAGTTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAA</genome_strand>
        <mrna_strand>CTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG................................................................................................................................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E301648" ref_strand="+" ref_description="SGN-E301648 [cLEW-23-C16]">
      <seq>ctggaggtggattgaggtcacatttggagtttgccttctcaacatccagtgcacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcatatttcaagatagagcccataacgaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtgattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaattccagcagaagtaggttcctctattgtaaaggagagctcttgcacaagttctgggttgaatgaaatttctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6260" stop="9736"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6560" g_stop="6813" g_length="254"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="254" r_length="254" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="0.94"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9037" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="417" r_length="163" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224">
            <donor d_prob="0.374" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9436" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="418" r_stop="592" r_length="175" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E301648" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>592</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E301648" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6560" e_stop="6813"/>
          <exon e_start="8875" e_stop="9037"/>
          <exon e_start="9262" e_stop="9436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTG</genome_strand>
        <mrna_strand>CTGGAGGTGGATTGAGGTCACATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCATATTTCAAGATAGAGCCCATAACGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG................................................................................................................................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTGATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E255283" ref_strand="+" ref_description="SGN-E255283 [cLEG-30-C9]">
      <seq>cacttgaaaatatctctggaatgcaggaagcttccaggtcaaaggaaacaggcaattcaattaatgattctggcactaaagatcaactcttcagtcagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6311" stop="9664"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6611" g_stop="6813" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="203" r_length="203" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9037" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="204" r_stop="366" r_length="163" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224">
            <donor d_prob="0.374" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9364" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="367" r_stop="469" r_length="103" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E255283" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E255283" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6611" e_stop="6813"/>
          <exon e_start="8875" e_stop="9037"/>
          <exon e_start="9262" e_stop="9364"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAA</genome_strand>
        <mrna_strand>CACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG................................................................................................................................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E273352" ref_strand="+" ref_description="SGN-E273352 [cLEN-3-J13]">
      <seq>cagactggcagttcaatgccatcagaggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaattccagcagaagtaggttcctctattgtaaaggagagctcttgcacaagttctgggttgaatgaaatttctgaggaggcagatagttttcatcagcttgaacatgtcatggaacgggtataaaatctcaatgaaaactaatatgcatttttgatattgtttggtgatgagtttcatcaaagtttgttttaagtgagtgatttgactaaacaaatttggcacacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6406" stop="9888"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6706" g_stop="6813" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="108" r_length="108" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9037" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="271" r_length="163" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224">
            <donor d_prob="0.374" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9588" g_length="327"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="598" r_length="327" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E273352" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>598</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E273352" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6706" e_stop="6813"/>
          <exon e_start="8875" e_stop="9037"/>
          <exon e_start="9262" e_stop="9588"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACC</genome_strand>
        <mrna_strand>CAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG................................................................................................................................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAAGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295033" ref_strand="+" ref_description="SGN-E295033 [cLET-40-G19]">
      <seq>aggatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagcttcagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcgatcactggatctcaagctctcacatccacaggtattcatcagcacaagctagttgatggatctgatattgggtattttcaggatggcttttcttacttatcttcagattacagtcattcagatcagactacggtggctggtatacgaacacatgaaaatgtggtggacaagctacttgaacgtgtctgtaattaagcatgaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6431" stop="9633"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6731" g_stop="6813" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="83" r_length="83" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9138" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="84" r_stop="347" r_length="264" r_score="0.977"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9139" i_stop="9261" i_length="123">
            <donor d_prob="0.612" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9333" g_length="72"/>
          <reference_exon_boundary r_type="cDNA" r_start="348" r_stop="420" r_length="73" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E295033" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>419</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E295033" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6731" e_stop="6813"/>
          <exon e_start="8875" e_stop="9138"/>
          <exon e_start="9262" e_stop="9333"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGT-TCTGTAATTAAGCATGAAAAC</genome_strand>
        <mrna_strand>AGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTTCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCGATCACTGGATCTCAAGCTCTCACATCCACAGGTATTCATCAGCACAAGCTAGTTGATGGATCTGATATTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACG...........................................................................................................................GTGGCTGGTATACGAACACATGAAAATGTGGTGGACAAGCTACTTGAACGTGTCTGTAATTAAGCATGAAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318635" ref_strand="+" ref_description="SGN-E318635 [cTOB-9-B6]">
      <seq>gatgaatcagccgttctgagtcatctatcttttacaaatggttcaagtgattcagatttcaagatagtgcccataaagaagattaatcttcacaaaattaactctaagctccagaatcaatctgagggaaaaagaaaacatgtttacgtggaaaatggggagacattcaactatattgatagccttccagaagagagaaaccatcctactgcaatcactggatctcaggctctcacatccacaggtattcagcagcacaagcaagttgatggatctgattttgggtattttcaggatggcttttcttacttatcttcagattacagtcattcagatcagactacggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="6433" stop="9643"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="6733" g_stop="6813" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="81" r_length="81" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="8875" g_stop="9138" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="82" r_stop="345" r_length="264" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="9139" i_stop="9261" i_length="123">
            <donor d_prob="0.612" d_score="1.00"/>
            <acceptor a_prob="0.747" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="9262" g_stop="9343" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="346" r_stop="427" r_length="82" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E318635" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>427</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318635" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="6733" e_stop="6813"/>
          <exon e_start="8875" e_stop="9138"/>
          <exon e_start="9262" e_stop="9343"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAGGTAAATTATTAATTTAGTGTACATCGGGCTTTCTGTTTAGCCTTTTATTCCACCTCAGCTTAACCTTTAAGGTGTTCTATTTGAAGATTGTTGAATTCAATGGAGGGATCAGGTTGAGATTTTGTCTAACATGCACACATGAACTAGTGATAGAGTGTTATTGGCGTTCAGCATGTTCATCTAATTTAAAATCTTAAGCTGATAGAGAGAACACACTTTTATTTACTTAATTATGTTTCCAACATGTCCTTTACATTTGGACTTGATTCTTTTTCATGGGCCAAGCATATGTAGATTCTTTTTTGTTAATGGGTAGCAATGAATTCCAAACCCAGTACATGTGGCTGCGGTAATACCGTGTTGACTCTGTCATCATCTCATCTAAAAACTCATGTTATATCTTTCATAAGCACTCTTTCTTTTCCAAAATCTTGTCTTAAGCAAGGAAATACATGCATTGATGAGGTGCACTGTCGCCGGCACCAATGGTTTTGACTCTATTTTTATGCGTGAAACTTCTCAAGAAACATATATGAACAAAGTGGCTCCCCTCATGTAAAGGGACAACTGGGTGCACTGTTTCATCTAAGATATTCTGGTAATGAACACAGTTGAAGCAATTTTTTTCATTTGTTCCTCACCTCAGTCTGATCTCTGTTTCTTTAGTTTCTTTGTTGTTTCTGATTCTTCACTTGTTTTTACTCTTTAAAAACAAATCTTCACAGCAAAATTAGGAAAGGATGACTAGGTGAGCAATTTGTAGCACTTTTTTTTTTTTGAAATGTTCACAATTTTATATATCAGTGCATAAAAATTGAGCCAACAACCATAATTTGAGACATGACAACCTGATCAAATACTATCCTATACACTTATATATATTCTAAACACACTAAGATAGATTCAGTAGCCAGTGTGAGTTCTTTTTTACACAAACAAAAAAATAAGAAAAGTGAATTCATCTTGATCTACTGAGTCGGACTATCCTTGCTTGAAAGAAATCTCTGATTCCTTTCCCTACAGACAGACCACCATATCTGAAATGGTATCCTTTTTCATCTCCTTTATGCCTGGGTATAAGATGACTCCTCTATTCCGGCATGTCACTCTTTCCCCTACTCCCCCTGGCCTCCGCGTCAATTTTTCTTCTAGAAATGAATCTTTAGAAGCAAAATCATGAGTTGGTGAAACAGGGAAAGGTGCTATTTGCAACATTGTATACACAAATTTGCCTTCCTTTTTTTCCATGTATAAATGTTACTCTTCTTTGTTTCATTTTATGTGATGCAGTTTAATTGGGCACAAAATTTGAAAGGGAGAGTAAGACTTTTGAAATTTGTGGTCTAAAACAAGTCTTAGATATCTGTGTGACTGCGGTAAGATGAGAATTTTAAAGTTAAATACAGAACGACATTATTGCTTTTGGGACAACTAAAAACTAAAATGCATCACATAAGTTGGGACAGGTGGAGTAGTTTGGAAAATTGTAATTTGTAATCCATCTTTGAAGAACGCACTTTTTTCTTGTCTTGTTGGTTGGATTATGGTTCCTGCATTGAAAATGTAAATTTGTTTCTATTATTGATTAATGAGGTGTGGTTCGAACTGACAACATTTATTTTGCTTGTATTATTGATACTGATGTGTACTCATGAATTGGTTGTGAGTATAGGATATCTCTTAATTAATACAATTTGAACCTTAAAGATATAAAAAGCGAATTCATCGTCCAACTGGTTTATTATCTTCAAATTTGAAAACAATATAAATTGAATAGAATTAACCCAAAATATCTAAACATGAATCTAATTAAGCCAAAAGCAATAGAACAAAACAAATATATGTCCCTCTTTGGACTTTCTAGGCGTTACCACCATTTTACGTTAAAAGGCAATGGTGCACCCGTCACCTTAAAACCCTGGTATGATTCTGGTGTTGAGTAAGGTAAATGTGTTCTAGAGTTCCTAACTCTCTGGATGTGCACATTCTACTTGATGCATTCATCCTGATATTAGTGTTCACAATGATCTGCTTCTTTCTAATCTGTTTATGGGGTTGCAGATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATC</genome_strand>
        <mrna_strand>GATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACG...........................................................................................................................GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E214148" ref_strand="+" ref_description="SGN-E214148 [cLEC-80-P12]">
      <seq>ctctcacatccacaggtattcagcagcacaagcaagttgatggatctgattttgggtattttcaggatggcttttcttacttatcttcagattacagtcattcagatcagactacggtttgtccaaccctatccacaattaaatctaaaaaaagctgtctcgtgactctttctgctaaggactcctgtgcgacaaatcagatgcagttgatggaaagcttacctgatccttcttttcaggtggctggtataggaacaaatgaaaatatggtggacaagctacttcaacgttctgtaattaagcatgaaaacaacagggatcttgaaagtgtcagcacgggaattccagcagaagtaggttcctctattgtaaaggagagctcttgcacaagttctgggttgaatgaaatttctgaggaggcagatagttttcatcagcttgaacatgtcatggaacggttggatgtaagaacaaagctacggataagggatagcttgtatcggttggctcagagtgctgaacaaaggcttagacatgctaatctcaataatggatctggtgatgatagtcacacaagcagagcatttgatgatgatggagcatacagatgcacaggatatttggacacggagacagacactaactctatagatcgatctattgctcacttactcttccacaggncttcaaactcatcagtgatggctgattctttgggcttggagtcaccttcacgattttcgagacttactcagcccaccatgattgatgagaacttgatttctgctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="8723" stop="11439"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="9023" g_stop="9480" g_length="458"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="458" r_length="458" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="10443" g_stop="10591" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="607" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278">
            <donor d_prob="0.986" 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="10870" g_stop="10999" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="608" r_stop="736" r_length="129" r_score="0.969"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84">
            <donor d_prob="0.930" d_score="0.94"/>
            <acceptor a_prob="0.814" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11084" g_stop="11139" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="737" r_stop="790" r_length="54" r_score="0.964"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E214148" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>793</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E214148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9023" e_stop="9480"/>
          <exon e_start="10443" e_stop="10591"/>
          <exon e_start="10870" e_stop="10999"/>
          <exon e_start="11084" e_stop="11139"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACCTTATTTGTGTAGGTCAATAGCTCAAACGACATGTGCAATGCTTTTAGATGGTTCTCAGCTGGATTAAGATAGTTTTTTAGTCGAGGGACAATATTAATGACAAACATATTATACAAATTCCTATATTCTGGGAAGGTTAATGATGTGCAGCTACACACTCTTGTAGCTTCACGCAGTCATAGAGAACTATTCTATTTTGTCAGGAAGTTGTCACACAGCATGCTGTAGCATTGTGCATACATCTGACTTTTTCTAACCATTCTAAATTAGAGATCTTTGTTATTTAATTGAGACATGTGAAGATGCTGAGTAAATAGGAACTCATTTGGTCCTCTTATTCATTATTTATATTTATACAGATCACATATTAAATTATTTTTTGTGTTAGAATAATTCATATTAGTGATGGCGTTTTACTAAGACTTATTTAGAAAAATCTTTGTTCATGTATATCTATAGTAACCTATATCATACTATTGCCTATAGCTACAGAATATAGATATAGAAAAGAGTATTTGTCTCTTAGTGCATGTTTGTGTTGCAGATAGCAATGCAGAGAGCTGATTGCTTATTTAGTACAACAGACAGCCTTAATATAAAAGCTGTTCCTCATCATCTTGCTGCTTGCTTATTTTAAATTATTAATCAGCGGATGTGCAAAAGCCTTCCAAAGTCTGACTTATCGTTGAGTGTCTTGAAACTATCTTTGTGTTAATCCTGTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTGGTATGTGGTTCTTCAAGTTTATACATTTAGTTGGAAATCAACTTTCTTTTCAGTACATGCATGTTTGTTAGCTCACTCTGTTGAGCCTTCTGGTTTAGTTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAGGTTGGTATCGTTTCTTGATGCCTTGGTCTACATGCATACTTCCCATATAGGCCGTATCATAGTTTGCATACTTCAAGCACACGGTATGTTTGGTTTAGTTAGTGAAGATCTTATGAAGCACATTTCTCACCCTTCGAGTTTGGAAAGTAAGTAGGTCTAGTCAGTCACACCTTGAATAAGCACTTTTCTTTTCTTGATACCAGTAATCATACTGGTAATGTGATAGATTCTGTTGGCTTCCTTTCTGTGGTCTTAACATCTATTGGCTTGTTTTTCAGATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACGGTAGGTGTTTCTGCATATGCTTCCAAAAATTTCATGTTCAACACCCTGTATCTCAAACACACCCTGCAACTTGTCAATGAACAGATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGG</genome_strand>
        <mrna_strand>CTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG......................................................................................................................................................................................................................................................................................ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGNCTTCAAACTCATCAGTGATGGCTGATTCTTTGGGCTTGGAGTCACCTT-CACG....................................................................................ATTTTCGAGAC-TTACTCAGCCCACC-ATGATTGATGAGAACTTGATTTCTGCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E369678" ref_strand="+" ref_description="SGN-E369678 [TUS-25-N18](-)">
      <seq>gctcttgcacaagttctgggttgaatgaaatttctgaggaggcagatagttttcatcagcttgaacatgtcatggaacggttggatgtaagaacaaagctacggataagggatagcttgtatcggttggctcagagtgctgaacaaaggcttagacatgctaatctcaataatggatctggtgatgatagtcacacaagcagagcatttgatgatgatggagcatacagatgcacaggatatttggacacggagacagacactaactctatagatcgatctattgctcacttactcttccacaggccttcaaactcatcagtgatggctgattctttggctttggagtcaccttccacgattttcgagacattactcagcccaccaatgattgatgagaacttgatttctgctggagaaaatgcagccgaaccagataaaggcacgaaatattaaacaggcttctatacaaatgggttgtgtttatttcaatttatgtcgcatggactcgcctacatgtatgtgcatgtaagtatctgctatggatacttatatactcttttgttgtttagtgtaattcgaagaatctaaacagtatgagaatgaggatctatgtcaaatagcttacagttactcgtgtgtttgtgtatgagaattatcaagaatctcaaatgagaaattatttcatgtaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="9101" stop="11724"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="9401" g_stop="9480" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="80" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="10443" g_stop="10591" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="81" r_stop="229" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278">
            <donor d_prob="0.986" 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="10870" g_stop="10999" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="230" r_stop="359" r_length="130" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.814" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11084" g_stop="11427" g_length="344"/>
          <reference_exon_boundary r_type="cDNA" r_start="360" r_stop="703" r_length="344" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E369678" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>703</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E369678" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="9401" e_stop="9480"/>
          <exon e_start="10443" e_stop="10591"/>
          <exon e_start="10870" e_stop="10999"/>
          <exon e_start="11084" e_stop="11427"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACCTTATTTGTGTAGGTCAATAGCTCAAACGACATGTGCAATGCTTTTAGATGGTTCTCAGCTGGATTAAGATAGTTTTTTAGTCGAGGGACAATATTAATGACAAACATATTATACAAATTCCTATATTCTGGGAAGGTTAATGATGTGCAGCTACACACTCTTGTAGCTTCACGCAGTCATAGAGAACTATTCTATTTTGTCAGGAAGTTGTCACACAGCATGCTGTAGCATTGTGCATACATCTGACTTTTTCTAACCATTCTAAATTAGAGATCTTTGTTATTTAATTGAGACATGTGAAGATGCTGAGTAAATAGGAACTCATTTGGTCCTCTTATTCATTATTTATATTTATACAGATCACATATTAAATTATTTTTTGTGTTAGAATAATTCATATTAGTGATGGCGTTTTACTAAGACTTATTTAGAAAAATCTTTGTTCATGTATATCTATAGTAACCTATATCATACTATTGCCTATAGCTACAGAATATAGATATAGAAAAGAGTATTTGTCTCTTAGTGCATGTTTGTGTTGCAGATAGCAATGCAGAGAGCTGATTGCTTATTTAGTACAACAGACAGCCTTAATATAAAAGCTGTTCCTCATCATCTTGCTGCTTGCTTATTTTAAATTATTAATCAGCGGATGTGCAAAAGCCTTCCAAAGTCTGACTTATCGTTGAGTGTCTTGAAACTATCTTTGTGTTAATCCTGTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTGGTATGTGGTTCTTCAAGTTTATACATTTAGTTGGAAATCAACTTTCTTTTCAGTACATGCATGTTTGTTAGCTCACTCTGTTGAGCCTTCTGGTTTAGTTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAGGTTGGTATCGTTTCTTGATGCCTTGGTCTACATGCATACTTCCCATATAGGCCGTATCATAGTTTGCATACTTCAAGCACACGGTATGTTTGGTTTAGTTAGTGAAGATCTTATGAAGCACATTTCTCACCCTTCGAGTTTGGAAAGTAAGTAGGTCTAGTCAGTCACACCTTGAATAAGCACTTTTCTTTTCTTGATACCAGTAATCATACTGGTAATGTGATAGATTCTGTTGGCTTCCTTTCTGTGGTCTTAACATCTATTGGCTTGTTTTTCAGATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACGGTAGGTGTTTCTGCATATGCTTCCAAAAATTTCATGTTCAACACCCTGTATCTCAAACACACCCTGCAACTTGTCAATGAACAGATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAATATATAACACGC</genome_strand>
        <mrna_strand>GCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG......................................................................................................................................................................................................................................................................................ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG....................................................................................ATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAAAAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E236057" ref_strand="+" ref_description="SGN-E236057 [cLED-16-N3]">
      <seq>gtaaacttgggctaggaaggggcagttagcagattttttggatgtaagaacaaagctacggataagggatagcttgtatcggttggctcagagtgctgaacaaaggcttagacatgctaatctcaataatggatctggtgatgatagtcacacaagcagagcatttgatgatgatggagcatacagatgcacaggatatttggacacggagacagacactaactctatagatcgatctattgctcacttactcttccacaggccttcaaactcatcagtgatggctgattctttggctttggagtcaccttccacgattttcgagacatttactcagcccaccaatgattgatgagaacttgatttctgctggagaaaatgcagccgaaccagataaaggcacgaaatattaaacaggcttctatacaaatgggtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="10008" stop="11502"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="10308" g_stop="10344" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="0.973"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="10345" i_stop="10442" i_length="98">
            <donor d_prob="0.905" d_score="0.00"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="10443" g_stop="10591" g_length="149"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="186" r_length="149" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278">
            <donor d_prob="0.986" 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="10870" g_stop="10999" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="187" r_stop="316" r_length="130" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.814" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="11084" g_stop="11202" g_length="119"/>
          <reference_exon_boundary r_type="cDNA" r_start="317" r_stop="436" r_length="120" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E236057" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>435</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E236057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="10308" e_stop="10344"/>
          <exon e_start="10443" e_stop="10591"/>
          <exon e_start="10870" e_stop="10999"/>
          <exon e_start="11084" e_stop="11202"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTGGTATGTGGTTCTTCAAGTTTATACATTTAGTTGGAAATCAACTTTCTTTTCAGTACATGCATGTTTGTTAGCTCACTCTGTTGAGCCTTCTGGTTTAGTTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAGGTTGGTATCGTTTCTTGATGCCTTGGTCTACATGCATACTTCCCATATAGGCCGTATCATAGTTTGCATACTTCAAGCACACGGTATGTTTGGTTTAGTTAGTGAAGATCTTATGAAGCACATTTCTCACCCTTCGAGTTTGGAAAGTAAGTAGGTCTAGTCAGTCACACCTTGAATAAGCACTTTTCTTTTCTTGATACCAGTAATCATACTGGTAATGTGATAGATTCTGTTGGCTTCCTTTCTGTGGTCTTAACATCTATTGGCTTGTTTTTCAGATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACGGTAGGTGTTTCTGCATATGCTTCCAAAAATTTCATGTTCAACACCCTGTATCTCAAACACACCCTGCAACTTGTCAATGAACAGATTTTCGAGACA-TTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTT</genome_strand>
        <mrna_strand>GTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTT..................................................................................................TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG......................................................................................................................................................................................................................................................................................ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG....................................................................................ATTTTCGAGACATTTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E220147" ref_strand="+" ref_description="SGN-E220147 [cLEL-12-O23](-)">
      <seq>taactctatagtcgaatctattgctcacttactcttccacaggccttcaaactcatcagtgatggctgattctttggctttggagtcaccttccacgattttcgagacattactcagcccaccaatgattgatgagaacttgatttctgctggagaaaatgcagccgaaccagataaaggcacgaaatattaaacaggcttctatacaaatgggttgtgtttatttcaatttatgtcgcatggactcgcctacatgtatgtgcatgtaagtatctgctatggatacttatatactcttttgttgtttagtgtaattcgaagaatctaaacagtatgagaatgaggatctatgtcaaatagcttacagttactcgtgtgtttgtgtatgagaattatcaagaatctcaaatgagaaattatttcatgtaataaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="10603" stop="11724"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="10903" g_stop="10999" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="97" r_length="97" r_score="0.959"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84">
            <donor d_prob="0.930" d_score="1.00"/>
            <acceptor a_prob="0.814" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="11084" g_stop="11416" g_length="333"/>
          <reference_exon_boundary r_type="cDNA" r_start="98" r_stop="430" r_length="333" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="431" polyA_stop="447"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E220147" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>430</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E220147" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="10903" e_stop="10999"/>
          <exon e_start="11084" e_stop="11416"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACGGTAGGTGTTTCTGCATATGCTTCCAAAAATTTCATGTTCAACACCCTGTATCTCAAACACACCCTGCAACTTGTCAATGAACAGATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAAT</genome_strand>
        <mrna_strand>TAACTCTATAGTCGAATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG....................................................................................ATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E732695" ref_strand="+" ref_description="SGN-E732695 [LB02DE08]">
      <seq>actgcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaantccgggggggggggcccccccccccccccccccaaaggggggaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22934" stop="1594"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22634" g_stop="22140" g_length="495"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="495" r_length="495" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22139" i_stop="21987" i_length="153">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.000" a_score="0.48"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="21986" g_stop="21933" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="496" r_stop="549" r_length="54" r_score="0.481"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="21932" i_stop="21603" i_length="330">
            <donor d_prob="0.000" d_score="0.50"/>
            <acceptor a_prob="0.557" a_score="0.44"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="21602" g_stop="21551" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="550" r_stop="601" r_length="52" r_score="0.462"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E732695" ref_strand="+">
        <total_alignment_score>0.902</total_alignment_score>
        <cumulative_length_of_scored_exons>601</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732695" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22634" e_stop="22140"/>
          <exon e_start="21986" e_stop="21933"/>
          <exon e_start="21602" e_stop="21551"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGTATATGTTGCAAAGGAGCTCTTTGAAGACTTATTCCAGATAGGTAGAATGTACCAAAATGTTCTTCAATCTCGTGCATGTCATGTGGAAAGTTTAAATTAGAGAGTTGTCAAAACAAGAAAGAGACTTTCATTTGCTGAAACGGACTACAAAAAGAAAGTAGGACAAGTAAATTGAAACGGAGGGGAGTACAAGATATTCTGTAGTTCAACATCATGTAATTGGTGATAGGTTGCTCGAACTCTTCAACAACATGCAAGGTGTGTGTCGGATCCTCCAAAAGTTTATGTATGTTTGAAGGATCTGACACATGAGCGACAACATTTTTGGAGGATTCGAGTAACATAGATTAGGTGATGAATGGACTAAATACTGAAGCAAAAACTTATTATACTCATAGGTAACTACATTTTTGGAGGATTCGAGTAACATAGATTAATGTGCTCCAGAAGTTTTTTGTGATTCCAAAAGAGCTTCCTTGATAGAGTACAATTGGGAAACAGTTTCAGTGATGTTCATTCTTTCAGCTCCAGAATATGCAGAACAAGCAACCCCGACTCGAAGAACAGAAACAAGAAA</genome_strand>
        <mrna_strand>ACTGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTAAAAA.........................................................................................................................................................AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA..........................................................................................................................................................................................................................................................................................................................................NTCCGGGGGGGGGGGCCCCCCCCCCCCCCCCCCCAAAGGGGGGAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295029" ref_strand="+" ref_description="SGN-E295029 [cLET-40-E19]">
      <seq>cttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttatacagtccgcttctgtataaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22641" stop="21825"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22341" g_stop="22126" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="216" r_length="216" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="217" polyA_stop="238"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E295029" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>216</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22341" e_stop="22126"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGTAT</genome_strand>
        <mrna_strand>CTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E541538" ref_strand="+" ref_description="SGN-E541538 [TUS-62-G4](-)">
      <seq>tcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttatacagtccgcttctgttaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22642" stop="21825"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22342" g_stop="22128" g_length="215"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="215" r_length="215" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="217" polyA_stop="238"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E541538" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>215</cumulative_length_of_scored_exons>
        <coverage percentage="0.903" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E541538" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22342" e_stop="22128"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGT</genome_strand>
        <mrna_strand>TCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733400" ref_strand="+" ref_description="SGN-E733400 [LB04DD03]">
      <seq>cgataactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23092" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22793" g_stop="22135" g_length="659"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="659" r_length="659" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E733400" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>659</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733400" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22793" e_stop="22135"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCG</genome_strand>
        <mrna_strand>CGATAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E355947" ref_strand="+" ref_description="SGN-E355947 [cLHT-21-L9]">
      <seq>tttttttaaagacaagaaaggggacttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactattgagtagtagtgcttgattttattgtcatgtgtcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21840" stop="22748"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22138" g_stop="22448" g_length="311"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="311" r_length="311" r_score="0.971"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E355947" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>311</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E355947" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22138" e_stop="22448"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGTATAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACA</genome_strand>
        <mrna_strand>TTTTTTTAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTGAGTAGTAGTGCTTGATTTTATTGTCATGTGTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282185" ref_strand="+" ref_description="SGN-E282185 [cLES-4-J22]">
      <seq>ttttttaaagacaagaaaggggacttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcctcagcaaatgtcttcttggtgacttgcacaacaaggtccacaaccgagacgttaggggtgggaacacggaaggcaatgccgttgagtttcccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21840" stop="22946"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22139" g_stop="22646" g_length="508"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="508" r_length="508" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E282185" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E282185" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22139" e_stop="22646"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTATAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCT</genome_strand>
        <mrna_strand>TTTTTTAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAAGGCAATGCCGTTGAGTTTCCCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733828" ref_strand="+" ref_description="SGN-E733828 [LB11AC03]">
      <seq>cacctactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttanaaaaannnnannnnnnnnnanaaaannaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23247" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22947" g_stop="22901" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22140" g_length="672"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="719" r_length="672" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E733828" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>719</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733828" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22947" e_stop="22901"/>
          <exon e_start="22811" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>CACCTACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTANAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291969" ref_strand="+" ref_description="SGN-E291969 [cLET-7-K2]">
      <seq>ttttttttttttttaaagacaagaaaggggacttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcctcagcaaatgtcttcttggtgacttgcacaacaaggtccacaaccgagacgttaggggtgggaacacggagggcaatgccgttgagtttccccttgaggcttgggagaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21840" stop="22962"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22140" g_stop="22662" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="532" r_length="523" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E291969" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291969" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22140" e_stop="22662"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAAC</genome_strand>
        <mrna_strand>TTTTTAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E278761" ref_strand="+" ref_description="SGN-E278761 [cLER-2-I6]">
      <seq>caccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttataaaaaaaaaaataaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22873" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22573" g_stop="22140" g_length="434"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="434" r_length="434" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="435" polyA_stop="460"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E278761" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>434</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278761" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22573" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>CACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291348" ref_strand="+" ref_description="SGN-E291348 [cLET-2-D13]">
      <seq>ttttttttttttttaaagacaagaaaggggacttttattgaattgagatttcacaagggggaaaattgctatagctctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaccaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21840" stop="22852"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22140" g_stop="22552" g_length="413"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="422" r_length="413" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E291348" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>413</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E291348" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22140" e_stop="22552"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTATAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCC</genome_strand>
        <mrna_strand>TTTTTAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGGGGAAAATTGCTATAGCTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCACCAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E397305" ref_strand="+" ref_description="SGN-E397305 [TUS-45-K20]">
      <seq>ttcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22836" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22536" g_stop="22140" g_length="397"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="397" r_length="397" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E397305" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>397</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E397305" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22536" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>TTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297123" ref_strand="+" ref_description="SGN-E297123 [cLET-29-A23]">
      <seq>tcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22835" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22535" g_stop="22140" g_length="396"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="396" r_length="396" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297123" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>396</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297123" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22535" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>TCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297257" ref_strand="+" ref_description="SGN-E297257 [cLET-29-A22]">
      <seq>tcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22835" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22535" g_stop="22140" g_length="396"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="396" r_length="396" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297257" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>396</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297257" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22535" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>TCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E230176" ref_strand="+" ref_description="SGN-E230176 [cLEL-33-G12](-)">
      <seq>tgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttatacaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22738" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22438" g_stop="22140" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="299" r_length="299" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="300" polyA_stop="315"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E230176" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>299</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E230176" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22438" e_stop="22140"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</genome_strand>
        <mrna_strand>TGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E746650" ref_strand="+" ref_description="SGN-E746650 [GI|47104100]">
      <seq>ctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25616" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25316" g_stop="25159" g_length="158"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="158" r_length="158" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="272" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="273" r_stop="574" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="575" r_stop="819" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22145" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="820" r_stop="1486" r_length="667" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="1487" polyA_stop="1501"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E746650" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>1486</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E746650" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25316" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E711240" ref_strand="+" ref_description="SGN-E711240 [FB01BF07]">
      <seq>ccgtagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggctaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaacttatatttttttacccttgcttgcagattcttattcctttttgaacatcgtaatgagaactataaccattttcccccttgtgaaatcccaattcaataaaagtccccttttcttgtcctttaaaaaaaaanaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23413" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23113" g_stop="22901" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="213" r_length="213" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22145" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="881" r_length="668" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="883" polyA_stop="899"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E711240" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>880</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E711240" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23113" e_stop="22901"/>
          <exon e_start="22811" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCC-TTTCTTGTCTTT</genome_strand>
        <mrna_strand>CCGTAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGCTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAACTTATATTTTTTTACCCTTGCTTGCAGATTCTTATTCCTTTTTGAACATCGTAATGAGAACTATAACCATTTTCCCCCTTGTGAAATCCCAATTCAATAAAAGTCCCCTTTTCTTGTCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E548239" ref_strand="+" ref_description="SGN-E548239 [TUS-59-F23](-)">
      <seq>tccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcttcttgtaccaccaactgccttgctcctttggtcaaggttcttgaccagaaatttggtattatcaagggaacaatgacaactactcactcttacaccggtgaccataggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagctctgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaatgtctcggttgtggaccttgttgtgcaagtcaccaagaagacttttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgatttttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttcacaccttgtgaaatctcaattcaataaaagtcccttttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23323" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23023" g_stop="22901" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="123" r_length="123" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22145" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="124" r_stop="791" r_length="668" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="792" polyA_stop="808"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E548239" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>790</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E548239" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23023" e_stop="22901"/>
          <exon e_start="22811" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTC-CACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCTTCTTGTACCACCAACTGCCTTGCTCCTTTGGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GTATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCATAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCTCTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAATGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACTTTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTTTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCACACCTTGTGAAATCTCAATTCAATAAAAGTCCCTTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E391359" ref_strand="+" ref_description="SGN-E391359 [TUS-47-N2](-)">
      <seq>catcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23268" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22968" g_stop="22901" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="68" r_length="68" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22145" g_length="667"/>
          <reference_exon_boundary r_type="cDNA" r_start="69" r_stop="735" r_length="667" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="736" polyA_stop="754"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E391359" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>735</cumulative_length_of_scored_exons>
        <coverage percentage="0.975" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E391359" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22968" e_stop="22901"/>
          <exon e_start="22811" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E348483" ref_strand="+" ref_description="SGN-E348483 [cTOF-30-G18]">
      <seq>gacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23092" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22792" g_stop="22145" g_length="648"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="648" r_length="648" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="649" polyA_stop="662"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E348483" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348483" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22792" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E348618" ref_strand="+" ref_description="SGN-E348618 [cTOF-30-G22]">
      <seq>gacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23092" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22792" g_stop="22145" g_length="648"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="648" r_length="648" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="649" polyA_stop="662"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E348618" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348618" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22792" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735088" ref_strand="+" ref_description="SGN-E735088 [LB14BF04]">
      <seq>cttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttacaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23058" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22758" g_stop="22145" g_length="614"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="614" r_length="614" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="615" polyA_stop="629"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735088" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>614</cumulative_length_of_scored_exons>
        <coverage percentage="0.976" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735088" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22758" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E286945" ref_strand="-" ref_description="SGN-E286945 [cLES-6-K9]">
      <seq>cacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggcccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaaaaaaaaaaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23024" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22724" g_stop="22145" g_length="580"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="580" r_length="580" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="581" polyA_stop="607"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E286945" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>580</cumulative_length_of_scored_exons>
        <coverage percentage="0.952" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E286945" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22724" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGCCCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E372443" ref_strand="+" ref_description="SGN-E372443 [TUS-32-K24](-)">
      <seq>gcagcactgaacatagttccaacctcaactggtgctgctaaggctgtgggtcttgttctcccaagcctcaaggggaaaatcaacggcattgccctccgtgttcccacccctaacgtttcggttgtggaccttgttgtgcaagtcaccaaaaagacatttgctgaggaagtgaatgctgcattcagaaaggccgctgataaggaactcaatggcattttatctgtttgtgatgaaccacttgtgtcagttgacttccggggcagtgacgggtcatcaactgttgatttttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacaaagggttgttgattttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtgggttaatttatatttttttaaccttggttgtagatttttattcctttttgaaaattgtaatgagaaatataacaattttcccccttgtgaaatttcaattcaataaaagtccccttttttgttttttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23016" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22716" g_stop="22145" g_length="572"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="572" r_length="572" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="574" polyA_stop="605"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E372443" ref_strand="+">
        <total_alignment_score>0.963</total_alignment_score>
        <cumulative_length_of_scored_exons>572</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E372443" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22716" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGGTCTTGTTCTCCCAAGCCTCAAGGGGAAAATCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTTTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAAAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAAAGGCCGCTGATAAGGAACTCAATGGCATTTTATCTGTTTGTGATGAACCACTTGTGTCAGTTGACTTCCGGGGCAGTGACGGGTCATCAACTGTTGATTTTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAAAGGGTTGTTGATTTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGGTTAATTTATATTTTTTTAACCTTGGTTGTAGATTTTTATTCCTTTTTGAAAATTGTAATGAGAAATATAACAATTTTCCCCCTTGTGAAATTTCAATTCAATAAAAGTCCCCTTTTTTGTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E740157" ref_strand="+" ref_description="SGN-E740157 [LC20BC11]">
      <seq>agcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23014" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22714" g_stop="22145" g_length="570"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="570" r_length="570" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="571" polyA_stop="582"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E740157" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>570</cumulative_length_of_scored_exons>
        <coverage percentage="0.979" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740157" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22714" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>AGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E239036" ref_strand="+" ref_description="SGN-E239036 [cLEL-9-E4](-)">
      <seq>ctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22900" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22600" g_stop="22145" g_length="456"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="456" r_length="456" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="457" polyA_stop="473"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E239036" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>456</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E239036" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22600" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E221082" ref_strand="+" ref_description="SGN-E221082 [cLEL-22-P17](-)">
      <seq>gtggaccttgttgtgcaagtcaccaagaagacatttgtgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22893" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22593" g_stop="22145" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="448" r_length="448" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="449" polyA_stop="465"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E221082" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E221082" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22593" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTG-TGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E265239" ref_strand="-" ref_description="SGN-E265239 [cLEI-2-P12]">
      <seq>cttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22887" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22587" g_stop="22145" g_length="443"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="443" r_length="443" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="444" polyA_stop="465"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E265239" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>443</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E265239" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22587" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>CTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E216991" ref_strand="+" ref_description="SGN-E216991 [cLEL-1-A18](-)">
      <seq>tgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgccaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttacccttgcttgtagattcttattcctttttgaaaattgtaatgagaactatacccattttcccccttgtgaaatccccattcaataaaagtcccctttcttgtcttaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22847" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22547" g_stop="22145" g_length="403"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="403" r_length="403" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="404" polyA_stop="424"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E216991" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>403</cumulative_length_of_scored_exons>
        <coverage percentage="0.950" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E216991" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22547" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGCCAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTACCCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATACCCATTTTCCCCCTTGTGAAATCCCCATTCAATAAAAGTCCCCTTTCTTGTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E226809" ref_strand="+" ref_description="SGN-E226809 [cLEL-26-D23](-)">
      <seq>tgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtcttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22847" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22547" g_stop="22145" g_length="403"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="403" r_length="403" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="404" polyA_stop="419"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E226809" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>403</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E226809" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22547" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E223168" ref_strand="+" ref_description="SGN-E223168 [cLEL-14-J17](-)">
      <seq>gctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22842" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22542" g_stop="22145" g_length="398"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="398" r_length="398" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="399" polyA_stop="415"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E223168" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>398</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223168" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22542" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E226672" ref_strand="+" ref_description="SGN-E226672 [cLEL-26-D23](-)">
      <seq>gcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtcttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22839" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22539" g_stop="22145" g_length="395"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="395" r_length="395" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="396" polyA_stop="411"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E226672" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E226672" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22539" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>GCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293080" ref_strand="+" ref_description="SGN-E293080 [cLET-12-I2]">
      <seq>tcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgacaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtcttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22811" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22511" g_stop="22145" g_length="367"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="367" r_length="367" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="368" polyA_stop="380"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E293080" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>367</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293080" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22511" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGACAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E221401" ref_strand="+" ref_description="SGN-E221401 [cLEL-22-P17](-)">
      <seq>tgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22748" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22448" g_stop="22145" g_length="304"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="304" r_length="304" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="305" polyA_stop="321"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E221401" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>304</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E221401" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22448" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E238688" ref_strand="+" ref_description="SGN-E238688 [cLEL-9-E4](-)">
      <seq>tcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctttaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22746" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22446" g_stop="22145" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="302" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="303" polyA_stop="319"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E238688" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>302</cumulative_length_of_scored_exons>
        <coverage percentage="0.947" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E238688" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22446" e_stop="22145"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</genome_strand>
        <mrna_strand>TCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E732515" ref_strand="+" ref_description="SGN-E732515 [LB02BE08]">
      <seq>gcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttcttgtctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23258" stop="21846"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22958" g_stop="22901" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22146" g_length="666"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="724" r_length="666" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E732515" 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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732515" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22958" e_stop="22901"/>
          <exon e_start="22811" e_stop="22146"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTT</genome_strand>
        <mrna_strand>GCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298933" ref_strand="+" ref_description="SGN-E298933 [cLET-42-O15]">
      <seq>acaagaaaggggacttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcctcagcaaatgtcttcttggtgacttgcacaacaaggtccacaaccgagacgttaggggtgggaacacggagggcaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21849" stop="22929"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22149" g_stop="22629" g_length="481"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E298933" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E298933" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22149" e_stop="22629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAAT</genome_strand>
        <mrna_strand>ACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E727650" ref_strand="+" ref_description="SGN-E727650 [LA15BC09]">
      <seq>gaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaacctatacaattttccaccctgtgaaatctcaattcaataaaagtcccctttcctggtctttaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23446" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="260" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22151" g_length="661"/>
          <reference_exon_boundary r_type="cDNA" r_start="261" r_stop="921" r_length="661" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="929" polyA_stop="939"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E727650" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>906</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727650" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</genome_strand>
        <mrna_strand>AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACCTATACAATTTTCCACCCTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E693350" ref_strand="+" ref_description="SGN-E693350 [LH_Ea01B12](-)">
      <seq>catcagcaatccctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagagacgtgtcatcaactgttgattcttcactccccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgccattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttacccttgcttgtagattcttattcctttttaaggattgtaatgagaactataacaattttccaccttttaaatggcaattcaataaaagtcccctttctttcttaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23268" stop="21840"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22968" g_stop="22901" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="68" r_length="68" r_score="0.985"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22151" g_length="661"/>
          <reference_exon_boundary r_type="cDNA" r_start="69" r_stop="728" r_length="660" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="733" polyA_stop="746"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E693350" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E693350" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22968" e_stop="22901"/>
          <exon e_start="22811" e_stop="22151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</genome_strand>
        <mrna_strand>CATCAGCAATCCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGAGACGTGTCATCAACTGTTGATTCTTCACTCCCCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGCCATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTACCCTTGCTTGTAGATTCTTATTCCTTTTTAAGGATTGTAATGAGAACTATAACAATTTTCCACCTT-TTAAATGGCAATTCAATAAAAGTCCCCTTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298696" ref_strand="+" ref_description="SGN-E298696 [cLET-44-J1]">
      <seq>ttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgatgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtgatgagaactataacaattttccaccttgtgaaatctcaattcaataaaagtcccctttctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22883" stop="21851"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22583" g_stop="22151" g_length="433"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="433" r_length="433" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E298696" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>433</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298696" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22583" e_stop="22151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</genome_strand>
        <mrna_strand>TTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGATGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTGATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E278384" ref_strand="-" ref_description="SGN-E278384 [cLEL-2-D4]">
      <seq>tcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccacggtgggaaatctcaattcaataaaagtcccctttcttgaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22773" stop="21850"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22473" g_stop="22151" g_length="323"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="323" r_length="323" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="325" polyA_stop="343"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E278384" ref_strand="-">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>323</cumulative_length_of_scored_exons>
        <coverage percentage="0.942" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E278384" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22473" e_stop="22151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</genome_strand>
        <mrna_strand>TCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACGGTGGGAAATCTCAATTCAATAAAAGTCCCCTTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E211355" ref_strand="+" ref_description="SGN-E211355 [cLEC-70-N4]">
      <seq>ttttttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccgccccccaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21863" stop="22667"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22159" g_stop="22355" g_length="197"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="197" r_length="197" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E211355" ref_strand="+">
        <total_alignment_score>0.980</total_alignment_score>
        <cumulative_length_of_scored_exons>197</cumulative_length_of_scored_exons>
        <coverage percentage="0.908" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E211355" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22159" e_stop="22355"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCT</genome_strand>
        <mrna_strand>TTTTTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733926" ref_strand="+" ref_description="SGN-E733926 [LB11BC08]">
      <seq>cttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23254" stop="21863"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22954" g_stop="22901" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22163" g_length="649"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="703" r_length="649" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E733926" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>703</cumulative_length_of_scored_exons>
        <coverage percentage="0.987" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733926" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22954" e_stop="22901"/>
          <exon e_start="22811" e_stop="22163"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAA</genome_strand>
        <mrna_strand>CTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E371517" ref_strand="+" ref_description="SGN-E371517 [TUS-29-J24](-)">
      <seq>aatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcaataaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23114" stop="21863"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22906" g_stop="22901" g_length="6"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="6" r_length="6" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22163" g_length="649"/>
          <reference_exon_boundary r_type="cDNA" r_start="7" r_stop="655" r_length="649" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E371517" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>655</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371517" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22906" e_stop="22901"/>
          <exon e_start="22811" e_stop="22163"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAA</genome_strand>
        <mrna_strand>AATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735231" ref_strand="+" ref_description="SGN-E735231 [LB14DB06]">
      <seq>gatctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattcnntaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23021" stop="21863"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22721" g_stop="22163" g_length="559"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="559" r_length="559" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="560" polyA_stop="579"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735231" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>559</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735231" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22721" e_stop="22163"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAA</genome_strand>
        <mrna_strand>GATCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCNNTAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277464" ref_strand="+" ref_description="SGN-E277464 [cLER-3-C10]">
      <seq>ttttattgaattgagatttcacaaggtggaaaattgttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcctcagcaaatgtcttcttggtgacttgcacaacaaggtccacaaccgagacgttaggggtgggaacacggagggcaatgccgttgagtttccccttgaggcttgggagaacaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21863" stop="22965"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22163" g_stop="22665" g_length="503"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="503" r_length="503" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E277464" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>503</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E277464" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22163" e_stop="22665"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAACAAG</genome_strand>
        <mrna_strand>TTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAACAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E732426" ref_strand="+" ref_description="SGN-E732426 [LB02AE12]">
      <seq>ggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcaattca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23384" stop="21869"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23084" g_stop="22901" g_length="184"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="184" r_length="184" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22169" g_length="643"/>
          <reference_exon_boundary r_type="cDNA" r_start="185" r_stop="827" r_length="643" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E732426" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>827</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E732426" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23084" e_stop="22901"/>
          <exon e_start="22811" e_stop="22169"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCA</genome_strand>
        <mrna_strand>GGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284217" ref_strand="+" ref_description="SGN-E284217 [cLER-16-E20]">
      <seq>ttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22883" stop="21879"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22583" g_stop="22172" g_length="412"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="412" r_length="412" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284217" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>412</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284217" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22583" e_stop="22172"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAAT</genome_strand>
        <mrna_strand>TTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728484" ref_strand="-" ref_description="SGN-E728484 [LA17DH09]">
      <seq>gccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctctcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaccttgtgaaatctcag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23363" stop="21874"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23063" g_stop="22901" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="163" r_length="163" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22173" g_length="639"/>
          <reference_exon_boundary r_type="cDNA" r_start="164" r_stop="802" r_length="639" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728484" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>802</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728484" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="23063" e_stop="22901"/>
          <exon e_start="22811" e_stop="22173"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAA</genome_strand>
        <mrna_strand>GCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTCTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282878" ref_strand="-" ref_description="SGN-E282878 [cLER-15-N5]">
      <seq>ggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttcccccttgtgaaaaaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22945" stop="21879"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22645" g_stop="22180" g_length="466"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="466" r_length="466" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="467" polyA_stop="493"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E282878" ref_strand="-">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>466</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282878" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22645" e_stop="22180"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAA</genome_strand>
        <mrna_strand>GGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCCCCTTGTGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340621" ref_strand="+" ref_description="SGN-E340621 [cTOF-1-G4]">
      <seq>agcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataancattttccaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23264" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22964" g_stop="22901" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="64" r_length="64" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22181" g_length="631"/>
          <reference_exon_boundary r_type="cDNA" r_start="65" r_stop="695" r_length="631" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E340621" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>695</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340621" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22964" e_stop="22901"/>
          <exon e_start="22811" e_stop="22181"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGA</genome_strand>
        <mrna_strand>AGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAANCATTTTCCAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E223046" ref_strand="+" ref_description="SGN-E223046 [cLEL-14-K22](-)">
      <seq>cacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccccctaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22912" stop="21886"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22612" g_stop="22185" g_length="428"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="428" r_length="428" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="429" polyA_stop="449"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E223046" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="0.953" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223046" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22612" e_stop="22185"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTT</genome_strand>
        <mrna_strand>CACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCCCCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E223271" ref_strand="+" ref_description="SGN-E223271 [cLEL-14-K22](-)">
      <seq>tgctgcattcaaagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacaaagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtgctactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagacctataacaattttccacctaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22843" stop="21886"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22543" g_stop="22185" g_length="359"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="359" r_length="359" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="360" polyA_stop="380"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E223271" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>359</cumulative_length_of_scored_exons>
        <coverage percentage="0.945" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223271" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22543" e_stop="22185"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTT</genome_strand>
        <mrna_strand>TGCTGCATTCAAAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAAAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTGCTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGACCTATAACAATTTTCCACCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735148" ref_strand="+" ref_description="SGN-E735148 [LB14CC07]">
      <seq>atccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23324" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23024" g_stop="22901" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="124" r_length="124" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22189" g_length="623"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="747" r_length="623" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="748" polyA_stop="762"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735148" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>747</cumulative_length_of_scored_exons>
        <coverage percentage="0.980" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23024" e_stop="22901"/>
          <exon e_start="22811" e_stop="22189"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</genome_strand>
        <mrna_strand>ATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E217863" ref_strand="+" ref_description="SGN-E217863 [cLEL-23-H18](-)">
      <seq>accttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22889" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22589" g_stop="22189" g_length="401"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="401" r_length="401" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="402" polyA_stop="417"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E217863" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>401</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E217863" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22589" e_stop="22189"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</genome_strand>
        <mrna_strand>ACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E224530" ref_strand="+" ref_description="SGN-E224530 [cLEL-27-G15](-)">
      <seq>gaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22867" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22567" g_stop="22189" g_length="379"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="379" r_length="379" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="380" polyA_stop="402"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E224530" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>379</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E224530" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22567" e_stop="22189"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</genome_strand>
        <mrna_strand>GAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E222100" ref_strand="+" ref_description="SGN-E222100 [cLEL-36-A22](-)">
      <seq>gtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccacttcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22848" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22548" g_stop="22189" g_length="360"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="361" r_length="361" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="362" polyA_stop="377"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E222100" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>360</cumulative_length_of_scored_exons>
        <coverage percentage="0.955" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E222100" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22548" e_stop="22189"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACT-CGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</genome_strand>
        <mrna_strand>GTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279862" ref_strand="-" ref_description="SGN-E279862 [cLER-8-A5]">
      <seq>ctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattcctttttgaaaattgtaatgagaactataacaattttccaaaaaaaaaaaaaaaaaactcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22823" stop="21889"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22523" g_stop="22189" g_length="335"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="335" r_length="335" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="336" polyA_stop="353"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E279862" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>335</cumulative_length_of_scored_exons>
        <coverage percentage="0.938" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279862" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="22523" e_stop="22189"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</genome_strand>
        <mrna_strand>CTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E224750" ref_strand="+" ref_description="SGN-E224750 [cLEL-27-G15](-)">
      <seq>aggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactccccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttacccttgcttgtagattcttattcctttttgaaaattgtaatcagaactataacaattttcccaccaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22817" stop="21887"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22517" g_stop="22190" g_length="328"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="328" r_length="328" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="333" polyA_stop="352"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E224750" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>328</cumulative_length_of_scored_exons>
        <coverage percentage="0.932" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E224750" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22517" e_stop="22190"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCC</genome_strand>
        <mrna_strand>AGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCCCCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTACCCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATCAGAACTATAACAATTTTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E733608" ref_strand="+" ref_description="SGN-E733608 [LB10BH06]">
      <seq>gggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtaaattcttattcctttttgaaaattgtaatgagaactataacaattt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23446" stop="21893"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="4" r_stop="248" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22193" g_length="619"/>
          <reference_exon_boundary r_type="cDNA" r_start="249" r_stop="867" r_length="619" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E733608" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>864</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E733608" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22193"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTT</genome_strand>
        <mrna_strand>AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAAATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279454" ref_strand="+" ref_description="SGN-E279454 [cLER-11-L12]">
      <seq>ttatagttctcattacaattttcaaaaaggaataagaatctacaagcaaggttaaaaaaatataaattaagccactatttagtagtactgctttattttattttcatgtttcatttccactggtttgcaacaatgtcagcaagatcaacaaccctctgtgagtaaccccattcattgtcataccaagcaataaccttaaccatgtcatctcccatgaccatggtgagtgaagaatcaacagttgatgacacgtcactgcaccggaagtcaactgacacgagtggttcatcacagacagatagaatgccattgagttccttatcagcggcctctctgaatgcagcattcacttcctcagcaaatgtcttcttggtgacttgcacaacaaggtccacaaccgagacgttaggggtgggaacacggagggcaatgccgttgagtttccccttgaggcttgggagaacaagagccacagccttagcagcaccagttgaggttggaactatgttcagtgctgcagctcgtgcacgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="21899" stop="23030"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22199" g_stop="22730" g_length="532"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="532" r_length="532" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E279454" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>532</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E279454" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22199" e_stop="22730"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAACAAGAGCCACAGCCTTAGCAGCACCAGTTGAGGTTGGAACTATGTTCAGTGCTGCAGCTCGTGCACGTC</genome_strand>
        <mrna_strand>TTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAACAAGAGCCACAGCCTTAGCAGCACCAGTTGAGGTTGGAACTATGTTCAGTGCTGCAGCTCGTGCACGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E716268" ref_strand="+" ref_description="SGN-E716268 [FB16CC12]">
      <seq>cagtgaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgtagattcttattccttttgaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23397" stop="21918"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23097" g_stop="22901" g_length="197"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="197" r_length="197" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22218" g_length="594"/>
          <reference_exon_boundary r_type="cDNA" r_start="198" r_stop="790" r_length="593" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E716268" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>791</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E716268" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23097" e_stop="22901"/>
          <exon e_start="22811" e_stop="22218"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAA</genome_strand>
        <mrna_strand>CAGTGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCC-TTTTGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E287400" ref_strand="+" ref_description="SGN-E287400 [cLES-15-K20]">
      <seq>ggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatatttttttaaccttgcttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22969" stop="21939"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22669" g_stop="22239" g_length="431"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="431" r_length="431" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E287400" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>431</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287400" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22669" e_stop="22239"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTA</genome_strand>
        <mrna_strand>GGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E289875" ref_strand="+" ref_description="SGN-E289875 [cLET-9-P4]">
      <seq>ttagcagcaccagttgaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtgctactaaatagtggcttaatttatatttttttaaccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22982" stop="21944"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22692" g_stop="22244" g_length="449"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="449" r_length="449" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E289875" ref_strand="+">
        <total_alignment_score>0.978</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289875" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22692" e_stop="22244"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGC</genome_strand>
        <mrna_strand>TTAGCAGCACCAGTTGAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTGCTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297626" ref_strand="+" ref_description="SGN-E297626 [cLET-28-O13]">
      <seq>tgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaatagtggcttaatttatattttttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23114" stop="21951"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22914" g_stop="22901" g_length="14"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="14" r_length="14" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22251" g_length="561"/>
          <reference_exon_boundary r_type="cDNA" r_start="15" r_stop="575" r_length="561" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297626" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>575</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297626" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22914" e_stop="22901"/>
          <exon e_start="22811" e_stop="22251"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTA</genome_strand>
        <mrna_strand>TGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E289271" ref_strand="+" ref_description="SGN-E289271 [cLES-18-M12]">
      <seq>tcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatggggttactcacagagggttgttgatcttgctgacattgttgcaaaccagtggaaatgaaacatgaaaataaaataaagcagtactactaaata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="22811" stop="21974"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22511" g_stop="22274" g_length="238"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="238" r_length="238" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E289271" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>238</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289271" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22511" e_stop="22274"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATA</genome_strand>
        <mrna_strand>TCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318882" ref_strand="+" ref_description="SGN-E318882 [cTOB-11-K21]">
      <seq>ggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcacagaggccgctgataaggaactcaatggcattctatctgtctgagatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttatcgcttggtatgacaatgaatggggatactcacaaagggttgttgatcttgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23112" stop="22034"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22812" g_stop="22334" g_length="479"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="479" r_length="479" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E318882" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>479</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318882" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22812" e_stop="22334"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGA</genome_strand>
        <mrna_strand>GGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCACAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGAGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATCGCTTGGTATGACAATGAATGGGGATACTCACAAAGGGTTGTTGATCTTGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E736987" ref_strand="+" ref_description="SGN-E736987 [LC08AC08]">
      <seq>cattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaagttattgcttggtatgacaatgaatggggttact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24202" stop="22059"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23902" g_stop="23729" g_length="174"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="174" r_length="174" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="419" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22359" g_length="453"/>
          <reference_exon_boundary r_type="cDNA" r_start="420" r_stop="872" r_length="453" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E736987" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>872</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736987" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23902" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22359"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACT</genome_strand>
        <mrna_strand>CATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAAGTTATTGCTTGGTATGACAATGAATGGGGTTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285511" ref_strand="+" ref_description="SGN-E285511 [cLES-10-I23]">
      <seq>gtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggagctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtgtcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaagggtattgcttggtatgacaatgaatggggttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23303" stop="22060"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23003" g_stop="22901" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22360" g_length="452"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="555" r_length="452" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285511" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>555</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285511" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23003" e_stop="22901"/>
          <exon e_start="22811" e_stop="22360"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTAC</genome_strand>
        <mrna_strand>GTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGAGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTGTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGGTATTGCTTGGTATGACAATGAATGGGGTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E705939" ref_strand="+" ref_description="SGN-E705939 [FA28CC05]">
      <seq>ctcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatggttaaggttattgcttggtatgacaatgaatgggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24217" stop="22064"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23917" g_stop="23729" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="189" r_length="189" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="190" r_stop="434" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22364" g_length="448"/>
          <reference_exon_boundary r_type="cDNA" r_start="435" r_stop="882" r_length="448" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E705939" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>882</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E705939" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23917" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22364"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGG</genome_strand>
        <mrna_strand>CTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318755" ref_strand="+" ref_description="SGN-E318755 [cTOB-11-E11]">
      <seq>aactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggatgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttacggtgcagcgacctgtcatcaactgatgattcttcactcaccatgggcatgggagatgacatggttaaggatattgcttggtatgacaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23089" stop="22072"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22789" g_stop="22372" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="418" r_length="418" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E318755" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>418</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318755" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22789" e_stop="22372"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAAT</genome_strand>
        <mrna_strand>AACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGATGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTACGGTGCAGCGACCTGTCATCAACTGATGATTCTTCACTCACCATGGGCATGGGAGATGACATGGTTAAGGATATTGCTTGGTATGACAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E262305" ref_strand="+" ref_description="SGN-E262305 [cLEG-56-H21]">
      <seq>tttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccgggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacatgggttaaggttattgcttggtatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24129" stop="22077"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23829" g_stop="23729" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="101" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="346" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22377" g_length="435"/>
          <reference_exon_boundary r_type="cDNA" r_start="347" r_stop="783" r_length="437" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E262305" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>781</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E262305" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23829" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22377"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCC-GGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACAT-GGTTAAGGTTATTGCTTGGTATG</genome_strand>
        <mrna_strand>TTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGGTTAAGGTTATTGCTTGGTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285515" ref_strand="+" ref_description="SGN-E285515 [cLES-10-K7]">
      <seq>gtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggagctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaactgttgattcttcactcaccatggtcatgggagatgacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23303" stop="22100"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23003" g_stop="22901" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22400" g_length="412"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="515" r_length="412" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285515" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>515</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285515" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23003" e_stop="22901"/>
          <exon e_start="22811" e_stop="22400"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACAT</genome_strand>
        <mrna_strand>GTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGAGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E212635" ref_strand="+" ref_description="SGN-E212635 [cLEC-73-C9]">
      <seq>aagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcagtgacgtgtcatcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24170" stop="22140"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23870" g_stop="23729" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="142" r_length="142" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="387" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22440" g_length="372"/>
          <reference_exon_boundary r_type="cDNA" r_start="388" r_stop="759" r_length="372" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E212635" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>759</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E212635" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23870" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22440"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAA</genome_strand>
        <mrna_strand>AAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E270885" ref_strand="+" ref_description="SGN-E270885 [cLEM-6-F23]">
      <seq>acatccaggccggagccaagaaagtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccactcgtgtcagttgacttccggtgcaatgacgtgtcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23377" stop="22142"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23077" g_stop="22901" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22442" g_length="370"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="547" r_length="370" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E270885" ref_strand="+">
        <total_alignment_score>0.996</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270885" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23077" e_stop="22901"/>
          <exon e_start="22811" e_stop="22442"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATC</genome_strand>
        <mrna_strand>ACATCCAGGCCGGAGCCAAGAAAGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAATGACGTGTCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E252606" ref_strand="+" ref_description="SGN-E252606 [cLEG-20-O6]">
      <seq>ggtttttgtagacagagaaggtgccggttaacacatccaggccggagccaagaaagtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaagctgaggctcttgttctcccaagcctcaaagggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcatagaggccgctgataaggaactcaatggcattttatctgtctgtgatgaaccactccgtgtcagttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23408" stop="22165"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23109" g_stop="22901" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="209" r_length="209" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22465" g_length="347"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="557" r_length="348" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E252606" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252606" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23109" e_stop="22901"/>
          <exon e_start="22811" e_stop="22465"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACT-CGTGTCAGTTGAC</genome_strand>
        <mrna_strand>GGTTTTTGTAGACAGAGAAGGTGCCGGTTAACACATCCAGGCCGGAGCCAAGAAAGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAAGCTGAGGCTCTTGTTCTCCCAAGCCTCAAAGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCATAGAGGCCGCTGATAAGGAACTCAATGGCATTTTATCTGTCTGTGATGAACCACTCCGTGTCAGTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E739848" ref_strand="+" ref_description="SGN-E739848 [LC19AE01]">
      <seq>ggattaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtgatgaaccact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24320" stop="22178"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24020" g_stop="23729" g_length="292"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="537" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22478" g_length="334"/>
          <reference_exon_boundary r_type="cDNA" r_start="538" r_stop="871" r_length="334" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E739848" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>871</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739848" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24020" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22478"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACT</genome_strand>
        <mrna_strand>GGATTAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735351" ref_strand="+" ref_description="SGN-E735351 [LC01AF11]">
      <seq>ccataagaggggcatggnagaaaagactcacctcttgatgtcctttccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgtctgtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24233" stop="22187"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23944" g_stop="23729" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="215" r_length="215" r_score="0.954"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="460" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22487" g_length="325"/>
          <reference_exon_boundary r_type="cDNA" r_start="461" r_stop="785" r_length="325" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735351" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>786</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735351" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23944" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22487"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGA</genome_strand>
        <mrna_strand>CCATAAGAG-GGGCATGGNAGAAAAGACTCACCTCTTGATGTCCTTTCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728553" ref_strand="+" ref_description="SGN-E728553 [LA18AG08]">
      <seq>aagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataangacctcaatggcattctatctgtctgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24318" stop="22188"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24018" g_stop="23729" g_length="290"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="290" r_length="290" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="291" r_stop="535" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22488" g_length="324"/>
          <reference_exon_boundary r_type="cDNA" r_start="536" r_stop="859" r_length="324" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728553" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>859</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728553" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24018" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22488"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTG</genome_strand>
        <mrna_strand>AAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAANGACCTCAATGGCATTCTATCTGTCTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698333" ref_strand="+" ref_description="SGN-E698333 [FA05DH11]">
      <seq>ggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatctgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24251" stop="22193"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23951" g_stop="23729" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="223" r_length="223" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="468" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22493" g_length="319"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="787" r_length="319" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E698333" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>787</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698333" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23951" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22493"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGT</genome_strand>
        <mrna_strand>GGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297837" ref_strand="+" ref_description="SGN-E297837 [cLET-38-F4]">
      <seq>tggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgataaggaactcaatggcattctatct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23439" stop="22195"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23139" g_stop="22901" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22495" g_length="317"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="556" r_length="317" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297837" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>556</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297837" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23139" e_stop="22901"/>
          <exon e_start="22811" e_stop="22495"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCT</genome_strand>
        <mrna_strand>TGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E204350" ref_strand="+" ref_description="SGN-E204350 [cLEC-13-G16]">
      <seq>cttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagagaatgctgcattcacagaggccgctgataaggaactcaatggcattctatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23254" stop="22196"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="22954" g_stop="22901" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22496" g_length="316"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="370" r_length="316" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E204350" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>370</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E204350" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="22954" e_stop="22901"/>
          <exon e_start="22811" e_stop="22496"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATC</genome_strand>
        <mrna_strand>CTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGAGAATGCTGCATTCACAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295694" ref_strand="+" ref_description="SGN-E295694 [cLET-25-H4]">
      <seq>tggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattcagagaggccgctgatnaagaactcaatggcattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23439" stop="22200"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23139" g_stop="22901" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22500" g_length="312"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="551" r_length="312" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E295694" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295694" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23139" e_stop="22901"/>
          <exon e_start="22811" e_stop="22500"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTC</genome_strand>
        <mrna_strand>TGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATNAAGAACTCAATGGCATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284662" ref_strand="+" ref_description="SGN-E284662 [cLES-3-K17]">
      <seq>ttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23434" stop="22234"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23134" g_stop="22901" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="234" r_length="234" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22534" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="235" r_stop="512" r_length="278" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284662" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>512</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284662" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23134" e_stop="22901"/>
          <exon e_start="22811" e_stop="22534"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTC</genome_strand>
        <mrna_strand>TTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E294825" ref_strand="+" ref_description="SGN-E294825 [cLET-17-J14]">
      <seq>taaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaggaagtgaatgctgcattc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23382" stop="22234"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23082" g_stop="22901" g_length="182"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="182" r_length="182" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22534" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="183" r_stop="460" r_length="278" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E294825" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>460</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294825" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23082" e_stop="22901"/>
          <exon e_start="22811" e_stop="22534"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTC</genome_strand>
        <mrna_strand>TAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E706773" ref_strand="+" ref_description="SGN-E706773 [FA30DE09]">
      <seq>cgggtaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctccccagcctcaaggggaaactcaacggcattgcgctgcgtgttcccaccccctacgtctcggttgtggaccttgttgtgccagtcaccaagaagacatttgctgaggaagtgaatgctgcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24327" stop="22235"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24027" g_stop="23729" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="299" r_length="299" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="300" r_stop="544" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22535" g_length="277"/>
          <reference_exon_boundary r_type="cDNA" r_start="545" r_stop="821" r_length="277" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E706773" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E706773" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24027" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22535"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATT</genome_strand>
        <mrna_strand>CGGGTAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCCAGCCTCAAGGGGAAACTCAACGGCATTGCGCTGCGTGTTCCCACCCCCTACGTCTCGGTTGTGGACCTTGTTGTGCCAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297943" ref_strand="+" ref_description="SGN-E297943 [cLET-38-H1]">
      <seq>caaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaagaagacatttgctgaagaagtgaatgctgcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24058" stop="22236"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23758" g_stop="23729" g_length="30"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="30" r_length="30" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="31" r_stop="275" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22536" g_length="276"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="551" r_length="276" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297943" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297943" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23758" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22536"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCAT</genome_strand>
        <mrna_strand>CAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAAGAAGTGAATGCTGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735335" ref_strand="+" ref_description="SGN-E735335 [LC01AD10]">
      <seq>ccgattaaaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggaccttgttgtgcaagtcaccaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24319" stop="22267"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24021" g_stop="23729" g_length="293"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="292" r_length="292" r_score="0.983"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="293" r_stop="537" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22567" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="538" r_stop="782" r_length="245" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735335" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>783</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735335" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24021" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22567"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAG</genome_strand>
        <mrna_strand>CCGATTAA-AAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738624" ref_strand="+" ref_description="SGN-E738624 [LC14BE06]">
      <seq>ctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaactctcactggtgctgctaaagctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttccacccctaacgtctcggttgtggacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25507" stop="22286"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25207" g_stop="25159" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="49" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="163" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="164" r_stop="465" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="710" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22586" g_length="226"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="935" r_length="225" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738624" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>936</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738624" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25207" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22586"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAAC-CTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCT</genome_strand>
        <mrna_strand>CTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACTCTC-ACTGGTGCTGCTAAAGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTT-CCACCCCTAACGTCTCGGTTGTGGACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E709044" ref_strand="+" ref_description="SGN-E709044 [FA42CB06]">
      <seq>agagggcaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagccctcaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctcggttgtggacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25307" stop="22287"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25011" g_stop="24929" g_length="83"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="83" r_length="83" r_score="0.928"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="84" r_stop="385" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="386" r_stop="630" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="22811" g_stop="22587" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="631" r_stop="855" r_length="225" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E709044" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>855</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E709044" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25011" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22587"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACC</genome_strand>
        <mrna_strand>AGAGGGCAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCCTCAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E263957" ref_strand="+" ref_description="SGN-E263957 [cLEG-64-I18]">
      <seq>gtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23402" stop="22298"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23102" g_stop="22901" g_length="202"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="202" r_length="202" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22598" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="203" r_stop="416" r_length="214" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E263957" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>416</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E263957" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23102" e_stop="22901"/>
          <exon e_start="22811" e_stop="22598"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTC</genome_strand>
        <mrna_strand>GTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290501" ref_strand="+" ref_description="SGN-E290501 [cLES-20-I13]">
      <seq>tcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgttcccacccctaacgtct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24086" stop="22299"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23786" g_stop="23729" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="303" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22599" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="304" r_stop="516" r_length="213" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E290501" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>516</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290501" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23786" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22599"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCT</genome_strand>
        <mrna_strand>TCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738392" ref_strand="+" ref_description="SGN-E738392 [LC13BH07]">
      <seq>tgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgccctccgtgtttccacccctaacg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25520" stop="22302"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25220" g_stop="25159" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="62" r_length="62" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="63" r_stop="176" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="177" r_stop="478" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="479" r_stop="723" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22602" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="724" r_stop="933" r_length="210" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738392" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>933</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738392" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25220" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22602"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACG</genome_strand>
        <mrna_strand>TGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTTCCACCCCTAACG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284822" ref_strand="+" ref_description="SGN-E284822 [cLER-19-I15]">
      <seq>ggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagtttacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgcccttcgtgtttccaccccta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24105" stop="22305"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23805" g_stop="23729" 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="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="78" r_stop="322" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22605" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="323" r_stop="529" r_length="207" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284822" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>529</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284822" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23805" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22605"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTA</genome_strand>
        <mrna_strand>GGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTTACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTTCGTGTTTCCACCCCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738752" ref_strand="+" ref_description="SGN-E738752 [LC14DE02]">
      <seq>agaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccagcctcaaggggaaactcaacggcattgccctccgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25500" stop="22317"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25200" g_stop="25159" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="458" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="703" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22617" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="704" r_stop="897" r_length="194" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738752" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>898</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738752" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25200" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22617"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTG</genome_strand>
        <mrna_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCC-AGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728862" ref_strand="+" ref_description="SGN-E728862 [LA19AG08]">
      <seq>aagaacaagaggatagtaactgaggcaaagatgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtacaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcaaccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtacacagagaacgtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcattgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24318" stop="22325"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24018" g_stop="23729" g_length="290"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="290" r_length="290" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="291" r_stop="535" r_length="245" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22625" g_length="187"/>
          <reference_exon_boundary r_type="cDNA" r_start="536" r_stop="722" r_length="187" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728862" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>722</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728862" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24018" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22625"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGC</genome_strand>
        <mrna_strand>AAGAACAAGAGGATAGTAACTGAGGCAAAGATGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTACAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCAACCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTACACAGAGAACGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E737365" ref_strand="+" ref_description="SGN-E737365 [LC09CB02]">
      <seq>ctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25487" stop="22327"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25187" g_stop="25159" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="143" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="144" r_stop="445" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="690" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22627" g_length="185"/>
          <reference_exon_boundary r_type="cDNA" r_start="691" r_stop="875" r_length="185" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E737365" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>875</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737365" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25187" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22627"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATT</genome_strand>
        <mrna_strand>CTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738051" ref_strand="+" ref_description="SGN-E738051 [LC12AG08]">
      <seq>tggctgctctctcactatccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgtttctccaagccctcaggggaaactcaacggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25493" stop="22329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25193" g_stop="25159" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="35" r_length="35" r_score="0.943"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="149" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="150" r_stop="451" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="452" r_stop="696" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22629" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="697" r_stop="879" r_length="183" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738051" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>879</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738051" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25193" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCA</genome_strand>
        <mrna_strand>TGGCTGCTCTCTCACTATCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTTCTCCAAGCCCTCAGGGGAAACTCAACGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257112" ref_strand="+" ref_description="SGN-E257112 [cLEG-44-N16]">
      <seq>aagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtctagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24174" stop="22329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23874" g_stop="23729" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="391" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22629" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="392" r_stop="574" r_length="183" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E257112" ref_strand="+">
        <total_alignment_score>0.998</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257112" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23874" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCA</genome_strand>
        <mrna_strand>AAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCTAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E256798" ref_strand="+" ref_description="SGN-E256798 [cLEG-40-E24]">
      <seq>tttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctgttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="23407" stop="22329"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23107" g_stop="22901" g_length="207"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="207" r_length="207" r_score="0.995"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="22811" g_stop="22629" g_length="183"/>
          <reference_exon_boundary r_type="cDNA" r_start="208" r_stop="390" r_length="183" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E256798" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>390</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E256798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23107" e_stop="22901"/>
          <exon e_start="22811" e_stop="22629"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCA</genome_strand>
        <mrna_strand>TTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTGTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298426" ref_strand="+" ref_description="SGN-E298426 [cLET-41-P2]">
      <seq>tagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactcaacgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24226" stop="22331"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23926" g_stop="23729" g_length="198"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="198" r_length="198" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="199" r_stop="443" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22631" g_length="181"/>
          <reference_exon_boundary r_type="cDNA" r_start="444" r_stop="624" r_length="181" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E298426" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>624</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298426" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23926" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22631"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGG</genome_strand>
        <mrna_strand>TAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E727406" ref_strand="+" ref_description="SGN-E727406 [LA14CD09]">
      <seq>aatgaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctcaaggggaaactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25502" stop="22336"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25202" g_stop="25159" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="44" r_length="44" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="158" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="460" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="461" r_stop="705" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22636" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="706" r_stop="881" r_length="176" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E727406" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>881</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727406" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25202" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22636"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTC</genome_strand>
        <mrna_strand>AATGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738994" ref_strand="+" ref_description="SGN-E738994 [LC15DA02]">
      <seq>ctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25515" stop="22348"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="718" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22648" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="719" r_stop="882" r_length="164" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738994" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>882</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738994" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22648"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTC</genome_strand>
        <mrna_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E737721" ref_strand="+" ref_description="SGN-E737721 [LC11AA04]">
      <seq>aattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctcccaagcct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25511" stop="22349"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25211" g_stop="25159" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="167" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="469" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="714" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22649" g_length="163"/>
          <reference_exon_boundary r_type="cDNA" r_start="715" r_stop="877" r_length="163" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E737721" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>877</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737721" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25211" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22649"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCT</genome_strand>
        <mrna_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729619" ref_strand="+" ref_description="SGN-E729619 [LA21CD05]">
      <seq>gagggttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22357"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25223" g_stop="25159" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="65" r_length="65" r_score="0.938"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="179" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="180" r_stop="481" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="726" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22657" g_length="155"/>
          <reference_exon_boundary r_type="cDNA" r_start="727" r_stop="881" r_length="155" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E729619" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>881</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729619" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25223" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22657"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTC</genome_strand>
        <mrna_strand>GAGGGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E253027" ref_strand="+" ref_description="SGN-E253027 [cLEG-25-N18]">
      <seq>aagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctcttgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24170" stop="22358"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23870" g_stop="23729" g_length="142"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="142" r_length="142" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="387" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22658" g_length="154"/>
          <reference_exon_boundary r_type="cDNA" r_start="388" r_stop="541" r_length="154" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E253027" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>541</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E253027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23870" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22658"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCT</genome_strand>
        <mrna_strand>AAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735395" ref_strand="+" ref_description="SGN-E735395 [LC01BF08]">
      <seq>gtaattctcttaacgtttatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttcccacctcaactggtgctgctaaggctgtggctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25494" stop="22362"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="0.909"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.90"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="168" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="470" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="715" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22662" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="716" r_stop="865" r_length="150" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735395" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>866</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735395" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22662"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTG</genome_strand>
        <mrna_strand>GTAATTCTCTTAACG-TTTATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCCACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E737590" ref_strand="+" ref_description="SGN-E737590 [LC10BH04]">
      <seq>ctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttcccacctcaactggtgctgctaaggctgtggctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25487" stop="22362"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25187" g_stop="25159" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="29" r_length="29" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="30" r_stop="143" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="144" r_stop="445" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="446" r_stop="690" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22662" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="691" r_stop="840" r_length="150" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E737590" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>840</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737590" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25187" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22662"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTG</genome_strand>
        <mrna_strand>CTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCCACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738545" ref_strand="+" ref_description="SGN-E738545 [LC14AC12]">
      <seq>ctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggctgtggctct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25507" stop="22364"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25207" g_stop="25159" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="49" r_length="49" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="163" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="164" r_stop="465" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="466" r_stop="710" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22664" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="711" r_stop="858" r_length="148" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738545" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>858</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738545" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25207" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22664"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCT</genome_strand>
        <mrna_strand>CTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E731651" ref_strand="+" ref_description="SGN-E731651 [LA27DB07]">
      <seq>ctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccnggtgaccaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgctaaggc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25515" stop="22373"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="718" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22673" g_length="139"/>
          <reference_exon_boundary r_type="cDNA" r_start="719" r_stop="857" r_length="139" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E731651" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>857</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731651" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22673"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACC-GGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGC</genome_strand>
        <mrna_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCNGGTGACC-AAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E736771" ref_strand="+" ref_description="SGN-E736771 [LC07AE08]">
      <seq>aatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgacccaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25553" stop="22378"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25253" g_stop="25159" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="209" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="511" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="512" r_stop="756" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22678" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="757" r_stop="890" r_length="134" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E736771" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>890</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736771" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25253" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22678"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCT</genome_strand>
        <mrna_strand>AATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCCAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E730534" ref_strand="+" ref_description="SGN-E730534 [LA24BF12]">
      <seq>cgctttaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttcccacctcaactggtgctgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="22378"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25217" g_stop="25159" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="173" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="475" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="476" r_stop="720" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22678" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="721" r_stop="854" r_length="134" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E730534" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>854</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E730534" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25217" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22678"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCT</genome_strand>
        <mrna_strand>CGCTTTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCCACCTCAACTGGTGCTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729421" ref_strand="+" ref_description="SGN-E729421 [LA21AA08]">
      <seq>agaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25500" stop="22380"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25200" g_stop="25159" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="458" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="703" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22680" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="704" r_stop="835" r_length="132" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E729421" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>835</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729421" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25200" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22680"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTG</genome_strand>
        <mrna_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E288029" ref_strand="+" ref_description="SGN-E288029 [cLES-7-N21]">
      <seq>cccccgggctgcaggtgacgtcaagctggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaactggtgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24127" stop="22381"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23836" g_stop="23729" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="108" r_length="108" r_score="0.889"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="109" r_stop="353" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22681" g_length="131"/>
          <reference_exon_boundary r_type="cDNA" r_start="354" r_stop="484" r_length="131" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E288029" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>484</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288029" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23836" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22681"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCT</genome_strand>
        <mrna_strand>CCCCCGGGCTGCAGGTGACGTCAAGCTGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729864" ref_strand="+" ref_description="SGN-E729864 [LA22BD04]">
      <seq>tgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacctcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="22389"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25214" g_stop="25159" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="170" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="472" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="717" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22689" g_length="123"/>
          <reference_exon_boundary r_type="cDNA" r_start="718" r_stop="840" r_length="123" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E729864" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>840</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729864" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25214" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22689"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAA</genome_strand>
        <mrna_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E739774" ref_strand="+" ref_description="SGN-E739774 [LC18DC02]">
      <seq>ccttaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgacccaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttccaacct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25498" stop="22392"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="5" r_stop="44" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="158" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="460" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="461" r_stop="705" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22692" g_length="120"/>
          <reference_exon_boundary r_type="cDNA" r_start="706" r_stop="825" r_length="120" r_score="0.992"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E739774" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>821</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739774" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22692"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCT</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCCAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E740967" ref_strand="+" ref_description="SGN-E740967 [LC23CG04]">
      <seq>cttatagtggctgctcatctcgtaggggggccttgtcctcaagtcaccccatagggttctgtgataatctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagttcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25345" stop="22396"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="0.912"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="458" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="703" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="22811" g_stop="22696" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="704" r_stop="819" r_length="116" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E740967" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>777</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740967" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22696"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTAACAACAAAGGATTCTCTGA-ATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCA</genome_strand>
        <mrna_strand>GTCACC-CCATAGGGTTCTGTGATAATCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E251059" ref_strand="+" ref_description="SGN-E251059 [cLEG-17-I17]">
      <seq>tccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagtt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24144" stop="22399"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23844" g_stop="23729" g_length="116"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="116" r_length="116" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="117" r_stop="361" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22699" g_length="113"/>
          <reference_exon_boundary r_type="cDNA" r_start="362" r_stop="474" r_length="113" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E251059" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E251059" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23844" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22699"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTT</genome_strand>
        <mrna_strand>TCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285652" ref_strand="+" ref_description="SGN-E285652 [cLES-5-F21]">
      <seq>tttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24129" stop="22400"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23829" g_stop="23729" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="101" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="346" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22700" g_length="112"/>
          <reference_exon_boundary r_type="cDNA" r_start="347" r_stop="458" r_length="112" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285652" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285652" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23829" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22700"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGT</genome_strand>
        <mrna_strand>TTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E249550" ref_strand="+" ref_description="SGN-E249550 [cLEF-56-F6]">
      <seq>aaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaagtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacatag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24292" stop="22401"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23992" g_stop="23729" g_length="264"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="264" r_length="264" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="265" r_stop="509" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22701" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="620" r_length="111" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E249550" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>620</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E249550" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23992" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22701"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAG</genome_strand>
        <mrna_strand>AAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAAGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E731569" ref_strand="+" ref_description="SGN-E731569 [LA27CB07]">
      <seq>cgctttaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="22403"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25217" g_stop="25159" g_length="59"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="59" r_length="59" r_score="0.966"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="60" r_stop="173" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="475" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="476" r_stop="720" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22703" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="721" r_stop="829" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E731569" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>829</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731569" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25217" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22703"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</genome_strand>
        <mrna_strand>CGCTTTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E735910" ref_strand="+" ref_description="SGN-E735910 [LC03CE11]">
      <seq>cgttttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25506" stop="22403"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25208" g_stop="25159" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="50" r_length="50" r_score="0.940"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.94"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="51" r_stop="164" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="466" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="711" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22703" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="712" r_stop="820" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E735910" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>820</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E735910" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25208" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22703"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</genome_strand>
        <mrna_strand>CGTTTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327142" ref_strand="+" ref_description="SGN-E327142 [cTOC-18-I2]">
      <seq>tcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcangggaaacatgacaactactcactcttacaccggtgaacaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgcagcactgaacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24216" stop="22403"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23916" g_stop="23729" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="188" r_length="188" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="433" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22703" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="542" r_length="109" r_score="0.963"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E327142" ref_strand="+">
        <total_alignment_score>0.993</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23916" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22703"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</genome_strand>
        <mrna_strand>TCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCANGGGAAACATGACAACTACTCACTCTTACACCGGTGAACAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729533" ref_strand="+" ref_description="SGN-E729533 [LA21BD09]">
      <seq>aattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatcttagacgtgcacgagctgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25511" stop="22415"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25211" g_stop="25159" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="167" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="469" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="714" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22715" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="715" r_stop="811" r_length="97" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E729533" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>811</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729533" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25211" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22715"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGC</genome_strand>
        <mrna_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E731422" ref_strand="+" ref_description="SGN-E731422 [LA27AC12]">
      <seq>ctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggtcggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcctgatgcaagccacagggatcttaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25515" stop="22431"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="718" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22730" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="719" r_stop="800" r_length="82" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E731422" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>800</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731422" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22730"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAG</genome_strand>
        <mrna_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGTCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCCTGATGCAAGCCACAGGGATCTTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266979" ref_strand="+" ref_description="SGN-E266979 [cLEI-7-D20]">
      <seq>gatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaacgtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccacagggatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24269" stop="22434"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23969" g_stop="23729" g_length="241"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="241" r_length="241" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="242" r_stop="486" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22734" g_length="78"/>
          <reference_exon_boundary r_type="cDNA" r_start="487" r_stop="564" r_length="78" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E266979" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E266979" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23969" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22734"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATC</genome_strand>
        <mrna_strand>GATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAACGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E731423" ref_strand="+" ref_description="SGN-E731423 [LA27AD01]">
      <seq>tccttttaaagaacnatggctgctctctcaaagccgacgcttctcttaaggttaacaacataggattctctgaattctctgggttgagaacctcatcagctgttccatttgggaggaaaactactgatgatttgttctctgttgctggctctcaaacctctgctattggaggaaggaaaaacaaaaggatagaaactgaggcatacttgaaagtggctatccctggatttggaacaattggaaggaacttcttgaggtgctggcatggtataaaagactcacctcttgatgtcattgccatcaatgacgctggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatgcaagccac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22441"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25209" g_stop="25159" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="50" r_length="50" r_score="0.863"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.86"/>
            <acceptor a_prob="0.974" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="51" r_stop="164" r_length="114" r_score="0.956"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.94"/>
            <acceptor a_prob="0.996" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="466" r_length="302" r_score="0.967"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="711" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22741" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="712" r_stop="782" r_length="71" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E731423" ref_strand="+">
        <total_alignment_score>0.972</total_alignment_score>
        <cumulative_length_of_scored_exons>783</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E731423" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25209" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22741"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCAC</genome_strand>
        <mrna_strand>TCCTTTTAAAGAACNATGGCTGCTCTCTCA-AAGCCGACGCTTCTCTTAAG....................................................................................................................GTTAACAACATAGGATTCTCTGAATTCTCTGGGTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTACTGATGATTTGTTCTCTGTTGCTGGCTCTCAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAAAACAAAAGGATAGAAACTGAGGCATACTTGAAAGTGGCTATCCCTGGATTTGGAACAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTATAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACGCTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E328137" ref_strand="+" ref_description="SGN-E328137 [cTOC-22-N14]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgancactactcactcttacaccggtgaccaaaggcttcttgatgcaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22445"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="426" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="671" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22745" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="672" r_stop="738" r_length="67" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E328137" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328137" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22745"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAG</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGANCACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E551142" ref_strand="+" ref_description="SGN-E551142 [TUS-55-H21]">
      <seq>ggccagntactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcnagggaacaatgacacctactcactcttacaccggtgaccaaaggcttcttgatgcaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24308" stop="22445"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24008" g_stop="23729" 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="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="525" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22745" g_length="67"/>
          <reference_exon_boundary r_type="cDNA" r_start="526" r_stop="592" r_length="67" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E551142" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>592</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E551142" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24008" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22745"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAG</genome_strand>
        <mrna_strand>GGCCAGNTACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCNAGGGAACAATGACACCTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E739277" ref_strand="+" ref_description="SGN-E739277 [LC16DC01]">
      <seq>ccattatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacnactactcactcttacaccggtgaccaaaggcttcttgatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25605" stop="22448"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25305" g_stop="25159" g_length="147"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="147" r_length="147" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="261" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="262" r_stop="563" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="564" r_stop="808" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22748" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="809" r_stop="872" r_length="64" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E739277" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>872</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739277" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25305" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22748"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGC</genome_strand>
        <mrna_strand>CCATTATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACNACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728148" ref_strand="+" ref_description="SGN-E728148 [LA16DE01]">
      <seq>gtcattctcttacagaaccatggctgctctctcagtagccaacacttctcttaaaggtaacagacaaaggattctctgaattctctgggttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttggtctctgttgctggcttacgaacctctgctattggaggaaggaagaacaatgaggataataactgacgcaaagttgaaagcggctatcattggatttggaagaattggaacgaacttcttgaggtgctggcatgggataaaagactcacctcttgatgtcattgccatcaatgacactggtggtgcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttgggactgatggcatctctgtcgaaggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagacaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="22449"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="0.927"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.94"/>
            <acceptor a_prob="0.974" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="170" r_length="115" r_score="0.947"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="472" r_length="302" r_score="0.960"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="717" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22749" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="718" r_stop="780" r_length="63" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728148" ref_strand="+">
        <total_alignment_score>0.970</total_alignment_score>
        <cumulative_length_of_scored_exons>779</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728148" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22749"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACA-ACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAA-GAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATG</genome_strand>
        <mrna_strand>GTCATTCTCTTACAGAACCATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAA....................................................................................................................GGTAACAGACAAAGGATTCTCTGAATTCTCTGGGTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGGTCTCTGTTGCTGGCTTACGAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAATGAGGATAATAACTGACGCAAAGTTGAAAGCGGCTATCATTGGATTTGGAAGAATTGGAACGAACTTCTTGAGGTGCTGGCATGGGATAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTG-CAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGGACTGATGGCATCTCTGTCGAAGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGACAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728139" ref_strand="+" ref_description="SGN-E728139 [LA16DD01]">
      <seq>cacttttcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgcttacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggcttcttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22451"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25171" g_stop="25159" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="13" r_length="13" r_score="0.923"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="127" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="128" r_stop="429" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="430" r_stop="674" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22751" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="675" r_stop="735" r_length="61" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728139" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>735</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728139" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25171" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22751"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGA</genome_strand>
        <mrna_strand>CACTTTTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTTACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E700332" ref_strand="+" ref_description="SGN-E700332 [FA12DC08]">
      <seq>atctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtgaccaaaggct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25618" stop="22457"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25318" g_stop="25159" g_length="160"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="160" r_length="160" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="274" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="275" r_stop="576" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="577" r_stop="821" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22757" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="822" r_stop="876" r_length="55" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E700332" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>876</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E700332" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25318" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22757"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCT</genome_strand>
        <mrna_strand>ATCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E328543" ref_strand="+" ref_description="SGN-E328543 [cTOC-23-I22]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagatatttggaattatncanggaacaatgacgactactcactcttacaccggtgacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22464"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="426" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="671" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22764" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="672" r_stop="719" r_length="48" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E328543" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>719</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22764"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACC</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGATATTTG.........................................................................................GAATTATNCANGGAACAATGACGACTACTCACTCTTACACCGGTGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E737859" ref_strand="+" ref_description="SGN-E737859 [LC11CA04]">
      <seq>attcggcacgaggaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcataaaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacaccggtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="22466"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="27" r_stop="66" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="67" r_stop="180" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="181" r_stop="482" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="483" r_stop="727" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22766" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="728" r_stop="773" r_length="46" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E737859" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>747</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E737859" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22766"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGA</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAAAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298766" ref_strand="+" ref_description="SGN-E298766 [cLET-44-G3]">
      <seq>ggaaaagtcatccaagtggtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagctatgcctcttgtaccaccaactgccttgctcctttggtcaaggttcttgaccagaaatttggaattatgaagggaacaatgacaactactcactcttacaccggtga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24081" stop="22466"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23781" g_stop="23729" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="298" r_length="245" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22766" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="299" r_stop="344" r_length="46" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E298766" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>344</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298766" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23781" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22766"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGA</genome_strand>
        <mrna_strand>GGAAAAGTCATCCAAGTGGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCTATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTGGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATGAAGGGAACAATGACAACTACTCACTCTTACACCGGTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E211719" ref_strand="+" ref_description="SGN-E211719 [cLEC-66-G1]">
      <seq>tttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaagggtcttgaccagaaatttggaattatctagggaacaatgacaactactcactcttacaccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24267" stop="22470"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23967" g_stop="23729" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="484" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22770" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="485" r_stop="526" r_length="42" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E211719" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E211719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23967" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22770"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCG</genome_strand>
        <mrna_strand>TTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGGTCTTGACCAGAAATTTG.........................................................................................GAATTATCTAGGGAACAATGACAACTACTCACTCTTACACCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E253874" ref_strand="+" ref_description="SGN-E253874 [cLEG-28-N4]">
      <seq>gatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttacac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24307" stop="22472"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24007" g_stop="23729" g_length="279"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="279" r_length="279" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="280" r_stop="524" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22772" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="564" r_length="40" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E253874" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>564</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E253874" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24007" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22772"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTACAC</genome_strand>
        <mrna_strand>GATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTACAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318783" ref_strand="+" ref_description="SGN-E318783 [cTOB-11-B21]">
      <seq>tgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactcttac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24298" stop="22474"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23998" g_stop="23729" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="270" r_length="270" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="271" r_stop="515" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22774" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="516" r_stop="553" r_length="38" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E318783" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318783" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23998" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22774"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTAC</genome_strand>
        <mrna_strand>TGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E322057" ref_strand="+" ref_description="SGN-E322057 [cTOB-29-O1]">
      <seq>ttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtncaggttcttgaccagaaatttggaattatcaagggaacnatgacaactactcactctta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25504" stop="22475"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25204" g_stop="25159" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="160" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="462" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="463" r_stop="707" r_length="245" r_score="0.992"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22775" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="708" r_stop="744" r_length="37" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E322057" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>744</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322057" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25204" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22775"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTTA</genome_strand>
        <mrna_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTNCAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACNATGACAACTACTCACTCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E553908" ref_strand="+" ref_description="SGN-E553908 [cTSC-2-J3]">
      <seq>ctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaagttcttgaccagaaatttggaattatcaagggaacaatgacaactactcactctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25598" stop="22476"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25298" g_stop="25159" g_length="140"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="140" r_length="140" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="141" r_stop="254" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="255" r_stop="556" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="557" r_stop="801" r_length="245" r_score="0.996"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22776" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="802" r_stop="837" r_length="36" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E553908" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>837</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E553908" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25298" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22776"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTCTT</genome_strand>
        <mrna_strand>CTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAAGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGGAACAATGACAACTACTCACTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698354" ref_strand="+" ref_description="SGN-E698354 [FA06AB09]">
      <seq>ccgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaatttatcagggaacaatgacaactactcactc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25521" stop="22478"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25221" g_stop="25159" g_length="63"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="63" r_length="63" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="64" r_stop="177" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="479" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="480" r_stop="724" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22778" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="725" r_stop="758" r_length="34" r_score="0.882"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E698354" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>758</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E698354" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25221" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22778"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACTCACTC</genome_strand>
        <mrna_strand>CCGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTTATCAGGGAACAATGACAACTACTCACTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E699368" ref_strand="+" ref_description="SGN-E699368 [FA09DB11]">
      <seq>aatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcaacaatgcctcttgtaccaccaactgccttgcttctttcgtccaggttcttgaccagaaatttggaattatcaggggaacaatgacaactact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25553" stop="22483"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25253" g_stop="25159" g_length="95"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="95" r_length="95" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="96" r_stop="209" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="210" r_stop="511" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="512" r_stop="756" r_length="245" r_score="0.988"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22783" g_length="29"/>
          <reference_exon_boundary r_type="cDNA" r_start="757" r_stop="785" r_length="29" r_score="0.966"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E699368" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>785</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E699368" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25253" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22783"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAACTACT</genome_strand>
        <mrna_strand>AATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAACAATGCCTCTTGTACCACCAACTGCCTTGCTTCTTTCGTCCAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAGGGGAACAATGACAACTACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E347530" ref_strand="+" ref_description="SGN-E347530 [cTOF-26-G13]">
      <seq>tcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccgtgaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccacaactgccttgctcctttcgntcaagttcttgaccagaaatttggattatcaaggaacaatgacac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25506" stop="22593"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25206" g_stop="25159" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="464" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="465" r_stop="708" r_length="244" r_score="0.971"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.90"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22788" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="709" r_stop="730" r_length="22" r_score="0.875"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E347530" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>733</cumulative_length_of_scored_exons>
        <coverage percentage="1.004" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347530" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25206" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22788"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGGAACAATGACAA</genome_strand>
        <mrna_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGTGAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCA-CAACTGCCTTGCTCCTTTCGNTCAAGTTCTTGACCAGAAATTTG.........................................................................................G-ATTATCAA-GGAACAATGACAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E347199" ref_strand="+" ref_description="SGN-E347199 [cTOF-25-M24]">
      <seq>ttctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattatcaaggggaactcaacggca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25509" stop="22593"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25209" g_stop="25159" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="51" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="52" r_stop="165" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="166" r_stop="467" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="468" r_stop="712" r_length="245" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22799" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="713" r_stop="725" r_length="13" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E347199" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>725</cumulative_length_of_scored_exons>
        <coverage percentage="0.982" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E347199" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25209" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22799"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTATCAAGGG</genome_strand>
        <mrna_strand>TTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTATCAAGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E270214" ref_strand="+" ref_description="SGN-E270214 [cLEM-1-O20]">
      <seq>gaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttgtttgccctttnccaaanaaanaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccagccgtgaccctgtgaacctcccatggggagaacttggagttcacttagtcatagaaggtaccggagtttttgtagacagagaaagtgccggtaaacacatccaggccggagccaagaaagtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttggaattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24319" stop="22596"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24019" g_stop="23729" g_length="291"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="310" r_length="310" r_score="0.866"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="311" r_stop="555" r_length="245" r_score="0.988"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22805" g_length="7"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="562" r_length="7" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E270214" ref_strand="+">
        <total_alignment_score>0.922</total_alignment_score>
        <cumulative_length_of_scored_exons>543</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270214" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24019" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACC----TT---C--T--C----AAA----TATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTAT</genome_strand>
        <mrna_strand>GAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTGTTTGCCCTTTNCCAAANAAANAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAGCCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTCACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAAGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAAGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG.........................................................................................GAATTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E323228" ref_strand="+" ref_description="SGN-E323228 [cTOB-28-E18]">
      <seq>tggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaaatgccttgctcctttcgtcaaggctcttgaccagaaatttggaattat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24281" stop="22596"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23981" g_stop="23729" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="253" r_length="253" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="498" r_length="245" r_score="0.992"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.96"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="22811" g_stop="22805" g_length="7"/>
          <reference_exon_boundary r_type="cDNA" r_start="499" r_stop="505" r_length="7" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E323228" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E323228" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23981" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22805"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTAT</genome_strand>
        <mrna_strand>TGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAAATGCCTTGCTCCTTTCGTCAAGGCTCTTGACCAGAAATTTG.........................................................................................GAATTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E315929" ref_strand="+" ref_description="SGN-E315929 [cTOA-26-H23]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttctttgacagaaatttggaatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22596"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="426" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="671" r_length="245" r_score="0.988"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89">
            <donor d_prob="0.995" d_score="0.94"/>
            <acceptor a_prob="0.982" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="22811" g_stop="22806" g_length="6"/>
          <reference_exon_boundary r_type="cDNA" r_start="672" r_stop="677" r_length="6" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E315929" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315929" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
          <exon e_start="22811" e_stop="22806"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTGGTAATACATCTTGATCTAGTCATACACGAGCATATACTGTTAGTATATATAACTTAAACTCATCAATAAATTATCTTTCCTTATCATAGGAATTA</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTTGACAGAAATTTG.........................................................................................GAATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E210978" ref_strand="+" ref_description="SGN-E210978 [cLEC-69-D16]">
      <seq>taaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgaccagaaatttgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25533" stop="22600"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25233" g_stop="25159" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="75" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="76" r_stop="189" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="190" r_stop="491" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22901" g_length="245"/>
          <reference_exon_boundary r_type="cDNA" r_start="492" r_stop="736" r_length="245" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E210978" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>736</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E210978" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25233" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG</genome_strand>
        <mrna_strand>TAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E727839" ref_strand="+" ref_description="SGN-E727839 [LA15DE12]">
      <seq>tcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25506" stop="22610"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25206" g_stop="25159" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="464" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22910" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="465" r_stop="700" r_length="236" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E727839" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>700</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E727839" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25206" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22910"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACC</genome_strand>
        <mrna_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E328542" ref_strand="+" ref_description="SGN-E328542 [cTOC-23-I20]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgntggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22611"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="426" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22911" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="661" r_length="235" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E328542" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>661</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E328542" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22911"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGAC</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGNTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E688954" ref_strand="+" ref_description="SGN-E688954 [t3_tus_55_H21]">
      <seq>ggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24295" stop="22612"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23995" g_stop="23729" g_length="267"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="267" r_length="267" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22912" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="501" r_length="234" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E688954" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>501</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E688954" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23995" e_stop="23729"/>
          <exon e_start="23145" e_stop="22912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGA</genome_strand>
        <mrna_strand>GGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E319427" ref_strand="+" ref_description="SGN-E319427 [cTOB-15-P3]">
      <seq>cttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggttaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24244" stop="22612"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23944" g_stop="23729" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="216" r_length="216" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22912" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="450" r_length="234" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E319427" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>450</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319427" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23944" e_stop="23729"/>
          <exon e_start="23145" e_stop="22912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGA</genome_strand>
        <mrna_strand>CTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTTAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728442" ref_strand="+" ref_description="SGN-E728442 [LA17DD03]">
      <seq>aattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaaactatcatcagcaatgcctctttgtacaccaactgccttgctcctttcgtcaaggttcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25511" stop="22613"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25211" g_stop="25159" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="53" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="167" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="168" r_stop="469" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22913" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="470" r_stop="702" r_length="233" r_score="0.979"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728442" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>702</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728442" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25211" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTG</genome_strand>
        <mrna_strand>AATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAAACTATCATCAGCAATGCCTCTTTGTACACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E296402" ref_strand="+" ref_description="SGN-E296402 [cLET-19-D6]">
      <seq>ggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcgtcaaggttcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24096" stop="22613"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23796" g_stop="23729" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="68" r_length="68" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22913" g_length="233"/>
          <reference_exon_boundary r_type="cDNA" r_start="69" r_stop="301" r_length="233" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E296402" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>301</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296402" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23796" e_stop="23729"/>
          <exon e_start="23145" e_stop="22913"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTG</genome_strand>
        <mrna_strand>GGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E252154" ref_strand="+" ref_description="SGN-E252154 [cLEG-8-M22]">
      <seq>ggtgtcaagctagcctctcaccttctcaaatatgactccaccgggggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaaactgccttgctactttcgtcaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24180" stop="22621"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23880" g_stop="23729" g_length="152"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="152" r_length="152" r_score="0.974"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22921" g_length="225"/>
          <reference_exon_boundary r_type="cDNA" r_start="153" r_stop="378" r_length="226" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E252154" ref_strand="+">
        <total_alignment_score>0.981</total_alignment_score>
        <cumulative_length_of_scored_exons>377</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252154" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23880" e_stop="23729"/>
          <exon e_start="23145" e_stop="22921"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACC-AACTGCCTTGCTCCTTTCGTCAA</genome_strand>
        <mrna_strand>GGTGTCAAGCTAGCCTCTCACCTTCTCAAATATGACTCCACCGGGGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAAACTGCCTTGCTACTTTCGTCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E345839" ref_strand="+" ref_description="SGN-E345839 [cTOF-18-P8]">
      <seq>ttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatcctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgtngntgggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaaatgcctcttgtaccaccaactgccttgctcctttcgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25518" stop="22623"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25218" g_stop="25159" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="60" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="174" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="476" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22923" g_length="223"/>
          <reference_exon_boundary r_type="cDNA" r_start="477" r_stop="701" r_length="225" r_score="0.973"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E345839" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E345839" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25218" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22923"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTT-GGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGC-AATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTC</genome_strand>
        <mrna_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATCCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTNGNTGGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E700472" ref_strand="+" ref_description="SGN-E700472 [FA13AH10]">
      <seq>tgctgttgctgtacttctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctttcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25523" stop="22625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25223" g_stop="25159" 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="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="66" r_stop="179" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="180" r_stop="481" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22925" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="482" r_stop="702" r_length="221" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E700472" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>702</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E700472" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25223" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCG</genome_strand>
        <mrna_strand>TGCTGTTGCTGTACTTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342582" ref_strand="+" ref_description="SGN-E342582 [cTOF-7-M9]">
      <seq>gtaattctcttaaagacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtacccgagtttttgtagacagagaaagtgccngtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctactttatgtgnntggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgccctcttgtaccaccaactgccttgctcctttcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="22625"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="168" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="470" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22925" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="471" r_stop="693" r_length="223" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E342582" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>692</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342582" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22925"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTAC-TTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG-CCTCTTGTACCACCAACTGCCTTGCTCCTTTCG</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAG-ACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCCGAGTTTTTGTAGACAGAGAAAGTGCCNGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTTATGTGNNTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCCTCTTGTACCACCAACTGCCTTGCTCCTTTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E254703" ref_strand="+" ref_description="SGN-E254703 [cLEG-29-D4]">
      <seq>gatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24307" stop="22628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24007" g_stop="23729" g_length="279"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="279" r_length="279" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22928" g_length="218"/>
          <reference_exon_boundary r_type="cDNA" r_start="280" r_stop="497" r_length="218" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E254703" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>497</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E254703" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24007" e_stop="23729"/>
          <exon e_start="23145" e_stop="22928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTT</genome_strand>
        <mrna_strand>GATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298506" ref_strand="+" ref_description="SGN-E298506 [cLET-41-I22]">
      <seq>gatgtcattgccatcaatcacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgcgggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24207" stop="22628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23907" g_stop="23729" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="179" r_length="179" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22928" g_length="218"/>
          <reference_exon_boundary r_type="cDNA" r_start="180" r_stop="397" r_length="218" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E298506" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>397</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298506" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23907" e_stop="23729"/>
          <exon e_start="23145" e_stop="22928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTT</genome_strand>
        <mrna_strand>GATGTCATTGCCATCAATCACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGCGGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E371518" ref_strand="+" ref_description="SGN-E371518 [TUS-29-J24]">
      <seq>ctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgcctttgctctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25490" stop="22629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25190" g_stop="25159" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="32" r_length="32" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="146" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="448" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22929" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="449" r_stop="666" r_length="218" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E371518" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>665</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E371518" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25190" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22929"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCC-TTGCTCCT</genome_strand>
        <mrna_strand>CTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTTGCTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329088" ref_strand="+" ref_description="SGN-E329088 [cTOC-24-N5]">
      <seq>tcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgctcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24216" stop="22630"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23916" g_stop="23729" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="188" r_length="188" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22930" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="189" r_stop="404" r_length="216" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E329088" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E329088" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23916" e_stop="23729"/>
          <exon e_start="23145" e_stop="22930"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCC</genome_strand>
        <mrna_strand>TCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E321746" ref_strand="+" ref_description="SGN-E321746 [cTOB-25-I8]">
      <seq>cttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgccccccggaaaggtgacatccctacttatgnttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25505" stop="22632"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25205" g_stop="25159" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="161" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="463" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22932" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="678" r_length="215" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E321746" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321746" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25205" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22932"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATG-TTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCT</genome_strand>
        <mrna_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCCGGAAAGGTGACATCCCTACTTATGNTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E322627" ref_strand="+" ref_description="SGN-E322627 [cTOB-26-M3]">
      <seq>tggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttgct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24281" stop="22632"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23981" g_stop="23729" g_length="253"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="253" r_length="253" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22932" g_length="214"/>
          <reference_exon_boundary r_type="cDNA" r_start="254" r_stop="467" r_length="214" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E322627" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E322627" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23981" e_stop="23729"/>
          <exon e_start="23145" e_stop="22932"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCT</genome_strand>
        <mrna_strand>TGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E709829" ref_strand="+" ref_description="SGN-E709829 [FA53BD06]">
      <seq>ccctatacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaacgtgccggtaaacacatccaggccggagcccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggcgtccatgctgaactttacagccatgatgaacctatcatcagcaatgccctcttgtaccaccaactgccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25566" stop="22633"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25267" g_stop="25159" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="109" r_length="109" r_score="0.972"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="223" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="224" r_stop="525" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22933" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="526" r_stop="740" r_length="215" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E709829" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>738</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E709829" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25267" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22933"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAG-CCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG-CCTCTTGTACCACCAACTGCCTTGC</genome_strand>
        <mrna_strand>CCCTATACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAACGTGCCGGTAAACACATCCAGGCCGGAGCCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGCGTCCATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCCTCTTGTACCACCAACTGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342153" ref_strand="+" ref_description="SGN-E342153 [cTOF-10-D11]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactnggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacgagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgtngnntggtgtcaatgctgaactttacagccatgatgaacctatncatcagcatgcctcttgtaccaccaactgccttgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22633"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="478" r_length="303" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22933" g_length="213"/>
          <reference_exon_boundary r_type="cDNA" r_start="479" r_stop="691" r_length="213" r_score="0.962"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E342153" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>690</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342153" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22933"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACT-GGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTG-TTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTAT-CATCAGCAATGCCTCTTGTACCACCAACTGCCTTGC</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTNGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGAC-GAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTNGNNTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATNCATCAGC-ATGCCTCTTGTACCACCAACTGCCTTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E320014" ref_strand="+" ref_description="SGN-E320014 [cTOB-31-O7]">
      <seq>tttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaanggacatccctacttatgttgntggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgccttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25551" stop="22634"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25251" g_stop="25159" g_length="93"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="93" r_length="93" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="94" r_stop="207" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="208" r_stop="509" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22934" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="510" r_stop="720" r_length="211" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E320014" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>721</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320014" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25251" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22934"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTG</genome_strand>
        <mrna_strand>TTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAANG-GACATCCCTACTTATGTTGNTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E723686" ref_strand="+" ref_description="SGN-E723686 [FC21BD11]">
      <seq>cggccgaattgattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtaccaccaactgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25577" stop="22637"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25284" g_stop="25159" g_length="126"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="126" r_length="126" r_score="0.944"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="127" r_stop="240" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="241" r_stop="542" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22937" g_length="209"/>
          <reference_exon_boundary r_type="cDNA" r_start="543" r_stop="751" r_length="209" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E723686" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>751</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E723686" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25284" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22937"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCC</genome_strand>
        <mrna_strand>CGGCCGAATTGATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E272613" ref_strand="+" ref_description="SGN-E272613 [cLEM-21-L19]">
      <seq>aaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggntggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgtngtttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgccctcttgtaccaccaactgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25563" stop="22638"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25263" g_stop="25159" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="219" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="522" r_length="303" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22938" g_length="208"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="732" r_length="210" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E272613" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>729</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E272613" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25263" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22938"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGG-TGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTG-TTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG-CCTCTTGTACCACCAACTGC</genome_strand>
        <mrna_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGNTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTNGTTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCCTCTTGTACCACCAACTGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E699259" ref_strand="+" ref_description="SGN-E699259 [FA09BC01]">
      <seq>ccaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgaccttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtccaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttgtac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25554" stop="22648"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25255" g_stop="25159" g_length="97"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="97" r_length="97" r_score="0.990"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="98" r_stop="211" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="212" r_stop="513" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22948" g_length="198"/>
          <reference_exon_boundary r_type="cDNA" r_start="514" r_stop="713" r_length="200" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E699259" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>711</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E699259" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25255" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22948"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGA-CTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGT-CAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTAC</genome_strand>
        <mrna_strand>CCAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACCTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316126" ref_strand="+" ref_description="SGN-E316126 [cTOA-23-F14]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccgggagtttttgtagacagagaaagtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgactccctacttatggtgntggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgcctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="22651"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="522" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22951" g_length="195"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="717" r_length="195" r_score="0.969"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E316126" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>717</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316126" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22951"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACC-GGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTG</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGGAGTTTTTGTAGACAGAGAAAGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGAC-TCCCTACTTATGGTGNTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E206598" ref_strand="+" ref_description="SGN-E206598 [cLEC-31-I10]">
      <seq>tttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24267" stop="22657"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23967" g_stop="23729" g_length="239"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22957" g_length="189"/>
          <reference_exon_boundary r_type="cDNA" r_start="240" r_stop="428" r_length="189" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E206598" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>428</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E206598" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23967" e_stop="23729"/>
          <exon e_start="23145" e_stop="22957"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGC</genome_strand>
        <mrna_strand>TTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E270985" ref_strand="+" ref_description="SGN-E270985 [cLEM-22-K3]">
      <seq>gctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="22658"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25216" g_stop="25159" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="172" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="474" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22958" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="475" r_stop="662" r_length="188" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E270985" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>662</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270985" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25216" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22958"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</genome_strand>
        <mrna_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268461" ref_strand="+" ref_description="SGN-E268461 [cLEI-13-N6]">
      <seq>cttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25505" stop="22658"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25205" g_stop="25159" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="161" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="463" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22958" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="651" r_length="188" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E268461" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>651</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268461" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25205" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22958"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</genome_strand>
        <mrna_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E207506" ref_strand="+" ref_description="SGN-E207506 [cLEC-36-M14]">
      <seq>tgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctatcatcagcaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24287" stop="22658"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23987" g_stop="23729" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="259" r_length="259" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22958" g_length="188"/>
          <reference_exon_boundary r_type="cDNA" r_start="260" r_stop="447" r_length="188" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E207506" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>447</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E207506" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23987" e_stop="23729"/>
          <exon e_start="23145" e_stop="22958"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</genome_strand>
        <mrna_strand>TGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E348125" ref_strand="+" ref_description="SGN-E348125 [cTOF-27-C5]">
      <seq>tctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgnccccggaaaaggtgacatccctactttatgtgttggtgtcaatgctgaactttacagccatgatgaacctatcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25486" stop="22665"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25186" g_stop="25159" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="142" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="444" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22965" g_length="181"/>
          <reference_exon_boundary r_type="cDNA" r_start="445" r_stop="625" r_length="181" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E348125" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>625</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E348125" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25186" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATC</genome_strand>
        <mrna_strand>TCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGNCCCCGGAAAAGGTGACATCCCTACTTTATGTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291831" ref_strand="+" ref_description="SGN-E291831 [cLET-7-G18]">
      <seq>cttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagccatgatgaacctat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24244" stop="22669"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23944" g_stop="23729" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="216" r_length="216" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="22969" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="217" r_stop="393" r_length="177" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E291831" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>393</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291831" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23944" e_stop="23729"/>
          <exon e_start="23145" e_stop="22969"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTAT</genome_strand>
        <mrna_strand>CTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E554077" ref_strand="+" ref_description="SGN-E554077 [cTSC-3-C20]">
      <seq>tcggcacgaggctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacattccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaactttacagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25598" stop="22682"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25309" g_stop="25159" g_length="151"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="151" r_length="151" r_score="0.954"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="265" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="266" r_stop="567" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22982" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="568" r_stop="732" r_length="165" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E554077" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>731</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E554077" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25309" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22982"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACA-TCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCC</genome_strand>
        <mrna_strand>TCGGCACGAGGCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATTCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E299035" ref_strand="+" ref_description="SGN-E299035 [cLET-42-H18]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaacttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22687"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="477" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22987" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="636" r_length="159" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E299035" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299035" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22987"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E249781" ref_strand="+" ref_description="SGN-E249781 [cLEF-57-J21]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaagtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaacttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="22687"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="471" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22987" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="630" r_length="159" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E249781" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>630</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E249781" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22987"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAAGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E366955" ref_strand="+" ref_description="SGN-E366955 [cLPT-6-E20]">
      <seq>cttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaaataatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaatcggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccaccctcggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgctgaacttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25505" stop="22687"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25205" g_stop="25159" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="161" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="463" r_length="302" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22987" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="622" r_length="159" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E366955" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>622</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25205" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22987"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</genome_strand>
        <mrna_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAAATAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATCGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTCGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342129" ref_strand="+" ref_description="SGN-E342129 [cTOF-10-E14]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactgagtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaaagatgtgctcatcaccgcccccggaacaggtgacatccctacttatgttgtnggtgtcaatgctgaacttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22688"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="478" r_length="303" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22988" g_length="158"/>
          <reference_exon_boundary r_type="cDNA" r_start="479" r_stop="636" r_length="158" r_score="0.968"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E342129" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>635</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342129" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22988"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTG-GTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTT</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGAGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAAGATGTGCTCATCACCGCCCCCGGAACAGGTGACATCCCTACTTATGTTGTNGGTGTCAATGCTGAACTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E391176" ref_strand="+" ref_description="SGN-E391176 [TUS-47-N2]">
      <seq>ccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25557" stop="22696"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25257" g_stop="25159" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="99" r_length="99" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="100" r_stop="213" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="214" r_stop="515" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22996" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="516" r_stop="665" r_length="150" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E391176" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>665</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E391176" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25257" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22996"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</genome_strand>
        <mrna_strand>CCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284477" ref_strand="+" ref_description="SGN-E284477 [cLER-16-J6]">
      <seq>caacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaaaaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25540" stop="22696"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25240" g_stop="25159" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="82" r_length="82" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="83" r_stop="196" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="197" r_stop="498" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22996" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="499" r_stop="648" r_length="150" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284477" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>648</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284477" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25240" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22996"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</genome_strand>
        <mrna_strand>CAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAAAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284892" ref_strand="+" ref_description="SGN-E284892 [cLER-19-J9]">
      <seq>aacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatgttgttggtgtcaatgc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25498" stop="22696"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="154" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="456" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="22996" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="457" r_stop="606" r_length="150" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284892" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>606</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284892" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="22996"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E243076" ref_strand="+" ref_description="SGN-E243076 [cLEF-1-N17]">
      <seq>tgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25283" stop="22712"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24983" g_stop="24929" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="357" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="23145" g_stop="23012" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="358" r_stop="491" r_length="134" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E243076" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E243076" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24983" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATG</genome_strand>
        <mrna_strand>TGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285590" ref_strand="+" ref_description="SGN-E285590 [cLES-5-O19]">
      <seq>gtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggaagttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24303" stop="22712"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="24003" g_stop="23729" 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="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="23012" g_length="134"/>
          <reference_exon_boundary r_type="cDNA" r_start="276" r_stop="409" r_length="134" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285590" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>409</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285590" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="24003" e_stop="23729"/>
          <exon e_start="23145" e_stop="23012"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATG</genome_strand>
        <mrna_strand>GTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAAGTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282396" ref_strand="+" ref_description="SGN-E282396 [cLER-18-F19]">
      <seq>gaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccggagccaagaaggtgctcatcaccgcccccggaaaaggtgacatccctacttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="24286" stop="22713"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="23986" g_stop="23729" g_length="258"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="258" r_length="258" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="23145" g_stop="23013" g_length="133"/>
          <reference_exon_boundary r_type="cDNA" r_start="259" r_stop="391" r_length="133" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E282396" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>391</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282396" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="23986" e_stop="23729"/>
          <exon e_start="23145" e_stop="23013"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTAT</genome_strand>
        <mrna_strand>GAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E315811" ref_strand="+" ref_description="SGN-E315811 [cTOA-26-H22]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacnactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaagggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccgaagccaagaaggtgctcatcaccgcccccggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22732"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="427" r_length="303" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23032" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="428" r_stop="542" r_length="115" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E315811" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>540</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315811" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23032"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGAC-ACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAA-GGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAA</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACNACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGAAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342275" ref_strand="+" ref_description="SGN-E342275 [cTOF-8-C10]">
      <seq>ttctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25509" stop="22764"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25209" g_stop="25159" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="51" r_length="51" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="52" r_stop="165" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="166" r_stop="467" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23064" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="468" r_stop="549" r_length="82" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E342275" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>549</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342275" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25209" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23064"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGA</genome_strand>
        <mrna_strand>TTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291573" ref_strand="+" ref_description="SGN-E291573 [cLET-6-M2]">
      <seq>tcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggccgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25482" stop="22764"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25182" g_stop="25159" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="24" r_length="24" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="25" r_stop="138" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="139" r_stop="440" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23064" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="441" r_stop="522" r_length="82" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E291573" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291573" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25182" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23064"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGA</genome_strand>
        <mrna_strand>TCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E319073" ref_strand="+" ref_description="SGN-E319073 [cTOB-14-B14]">
      <seq>ttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgatgcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgagaccctgtgaacctaccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccaggcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25504" stop="22767"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25204" g_stop="25159" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="160" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="462" r_length="302" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23067" g_length="79"/>
          <reference_exon_boundary r_type="cDNA" r_start="463" r_stop="541" r_length="79" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E319073" ref_strand="+">
        <total_alignment_score>0.994</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319073" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25204" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCC</genome_strand>
        <mrna_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGATGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGAGACCCTGTGAACCTACCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290796" ref_strand="+" ref_description="SGN-E290796 [cLET-10-K17]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttaatcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacacatccagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22769"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="477" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23069" g_length="77"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="554" r_length="77" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E290796" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>554</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290796" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23069"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGG</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAATCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E202465" ref_strand="+" ref_description="SGN-E202465 [cLEC-6-G22]">
      <seq>attctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctgcaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttattcatagaaggtaccggagtttttgtagacagagaaggtgccggtaaacaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25510" stop="22775"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25210" g_stop="25159" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="166" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="167" r_stop="468" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23075" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="539" r_length="71" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E202465" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>539</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202465" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25210" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23075"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACA</genome_strand>
        <mrna_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTGCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTATTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285315" ref_strand="+" ref_description="SGN-E285315 [cLER-20-C12]">
      <seq>gctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagagaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="22790"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25216" g_stop="25159" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="172" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="474" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23090" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="475" r_stop="530" r_length="56" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285315" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>530</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285315" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25216" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23090"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAG</genome_strand>
        <mrna_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E294643" ref_strand="+" ref_description="SGN-E294643 [cLET-22-M10]">
      <seq>gtgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="22793"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23093" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="474" r_stop="526" r_length="53" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E294643" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E294643" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23093"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAG</genome_strand>
        <mrna_strand>GTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E269266" ref_strand="+" ref_description="SGN-E269266 [cLEM-18-E20]">
      <seq>agaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacagag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25500" stop="22793"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25200" g_stop="25159" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="458" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23093" 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="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E269266" 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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E269266" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25200" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23093"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAG</genome_strand>
        <mrna_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291992" ref_strand="+" ref_description="SGN-E291992 [cLET-7-B21]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtagacag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="22795"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="471" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23095" g_length="51"/>
          <reference_exon_boundary r_type="cDNA" r_start="472" r_stop="522" r_length="51" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E291992" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291992" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23095"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAG</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285123" ref_strand="+" ref_description="SGN-E285123 [cLER-20-O13]">
      <seq>tgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttantcatagaaggtaccggagtttttgtagac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="22797"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25214" g_stop="25159" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="170" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="472" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23097" g_length="49"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="521" r_length="49" r_score="0.980"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285123" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285123" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25214" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23097"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGAC</genome_strand>
        <mrna_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTANTCATAGAAGGTACCGGAGTTTTTGTAGAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E272268" ref_strand="+" ref_description="SGN-E272268 [cLEM-19-B19]">
      <seq>agaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25500" stop="22799"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25200" g_stop="25159" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="458" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23099" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="459" r_stop="505" r_length="47" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E272268" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E272268" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25200" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23099"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAG</genome_strand>
        <mrna_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E255027" ref_strand="+" ref_description="SGN-E255027 [cLEG-31-G9]">
      <seq>gaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgtag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25499" stop="22799"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25199" g_stop="25159" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="155" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="457" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23099" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="458" r_stop="504" r_length="47" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E255027" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>504</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E255027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25199" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23099"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAG</genome_strand>
        <mrna_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E344531" ref_strand="+" ref_description="SGN-E344531 [cTOF-14-J10]">
      <seq>tctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggangtgacttagtcatagaaagtaccggagtttttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25617" stop="22800"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25317" g_stop="25159" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="273" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="575" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.93"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23100" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="576" r_stop="621" r_length="46" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E344531" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344531" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25317" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23100"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTA</genome_strand>
        <mrna_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGANGTGACTTAGTCATAGAAAGTACCGGAGTTTTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E344574" ref_strand="+" ref_description="SGN-E344574 [cTOF-14-I9]">
      <seq>tctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25617" stop="22800"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25317" g_stop="25159" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="273" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="575" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23100" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="576" r_stop="621" r_length="46" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E344574" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>621</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E344574" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25317" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23100"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTA</genome_strand>
        <mrna_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268641" ref_strand="+" ref_description="SGN-E268641 [cLEM-9-C17]">
      <seq>gttgctgttattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22800"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="0.984"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="477" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23100" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="523" r_length="46" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E268641" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268641" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23100"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTA</genome_strand>
        <mrna_strand>GTTGCTGTTATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327891" ref_strand="+" ref_description="SGN-E327891 [cTOC-22-A12]">
      <seq>tctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaagtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25617" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25317" g_stop="25159" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="273" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="575" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="576" r_stop="620" r_length="45" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E327891" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>620</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327891" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25317" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAAGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316027" ref_strand="+" ref_description="SGN-E316027 [cTOA-23-E20]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaaccctccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="522" r_length="302" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.96"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="523" r_stop="567" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E316027" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>567</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCCTCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E272658" ref_strand="+" ref_description="SGN-E272658 [cLEM-21-P12]">
      <seq>aaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcataaaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25563" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25263" g_stop="25159" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="219" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="521" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="522" r_stop="566" r_length="45" r_score="0.978"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E272658" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>566</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E272658" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25263" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAAAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E212721" ref_strand="+" ref_description="SGN-E212721 [cLEC-73-J11]">
      <seq>ttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25550" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25250" g_stop="25159" g_length="92"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="92" r_length="92" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="93" r_stop="206" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="207" r_stop="508" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="509" r_stop="553" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E212721" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>553</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E212721" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25250" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>TTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E299185" ref_strand="+" ref_description="SGN-E299185 [cLET-42-L24]">
      <seq>cttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctgccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25505" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25205" g_stop="25159" g_length="47"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="47" r_length="47" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="48" r_stop="161" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="162" r_stop="463" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="464" r_stop="508" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E299185" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E299185" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25205" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>CTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTGCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E319072" ref_strand="+" ref_description="SGN-E319072 [cTOB-14-B12]">
      <seq>ttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25504" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25204" g_stop="25159" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="160" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="462" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="463" r_stop="507" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E319072" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>507</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E319072" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25204" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E315710" ref_strand="+" ref_description="SGN-E315710 [cTOA-26-I9]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22801"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="426" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23101" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="427" r_stop="471" r_length="45" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E315710" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E315710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23101"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E270654" ref_strand="+" ref_description="SGN-E270654 [cLEM-6-O1]">
      <seq>ttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25559" stop="22802"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25259" g_stop="25159" g_length="101"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="101" r_length="101" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="102" r_stop="215" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="216" r_stop="517" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23102" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="518" r_stop="561" r_length="44" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E270654" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>561</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E270654" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25259" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23102"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTG</genome_strand>
        <mrna_strand>TTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268676" ref_strand="+" ref_description="SGN-E268676 [cLEM-9-E1]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="22802"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="477" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23102" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="478" r_stop="521" r_length="44" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E268676" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268676" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23102"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTG</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E246447" ref_strand="+" ref_description="SGN-E246447 [cLEF-52-O8]">
      <seq>tctcttaaagaacaacggctgctctctcagaacccaacactggtcttaagcgttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccattggggaggaaaactaatgatgattcgttctctgttgctggcttacaaacgcttgctattggaggaacgaagaacaagacgatactaactgaagccaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtggcaagcaagcctctcaccttctcaacatatgactccacccttggcatctttgatgctgacgtcaagccggctggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagttttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="22803"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25208" g_stop="25159" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="50" r_length="50" r_score="0.900"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.90"/>
            <acceptor a_prob="0.974" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="51" r_stop="165" r_length="115" r_score="0.939"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.92"/>
            <acceptor a_prob="0.996" a_score="0.90"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="166" r_stop="468" r_length="303" r_score="0.970"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23103" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="469" r_stop="511" r_length="43" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E246447" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>509</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246447" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25208" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23103"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAG-GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAA-ATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTT</genome_strand>
        <mrna_strand>TCTCTTAAAGAACAACGGCTGCTCTCTCAGAACCCAACACTGGTCTTAAG....................................................................................................................CGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTGGGGAGGAAAACTAATGATGATTCGTTCTCTGTTGCTGGCTTACAAACGCTTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAACGAAGAACAAGACGATACTAACTGAAGCCAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGGCAAGCAAGCCTCTCACCTTCTCAACATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGCTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257981" ref_strand="+" ref_description="SGN-E257981 [cLEG-48-F17]">
      <seq>tactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggagtttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25526" stop="22804"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25226" g_stop="25159" g_length="68"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="68" r_length="68" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="69" r_stop="182" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="183" r_stop="484" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23104" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="485" r_stop="526" r_length="42" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E257981" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>526</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257981" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25226" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23104"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTT</genome_strand>
        <mrna_strand>TACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E355955" ref_strand="+" ref_description="SGN-E355955 [cLHT-21-P5]">
      <seq>ccaacacttctcttaaggctaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctcagctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgttggcatggtagaaaagactctcctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25475" stop="22808"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25175" g_stop="25159" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="17" r_length="17" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="131" r_length="114" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="433" r_length="302" r_score="0.993"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23108" g_length="38"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="471" r_length="38" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E355955" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>471</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E355955" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25175" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23108"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAG</genome_strand>
        <mrna_strand>CCAACACTTCTCTTAAG....................................................................................................................GCTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCAGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCTCCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279405" ref_strand="+" ref_description="SGN-E279405 [cLER-11-H20]">
      <seq>tgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcatgcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="22810"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25214" g_stop="25159" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="170" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="472" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23110" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="473" r_stop="508" r_length="36" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E279405" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>508</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279405" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25214" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23110"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGG</genome_strand>
        <mrna_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCATGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277457" ref_strand="+" ref_description="SGN-E277457 [cLER-3-I11]">
      <seq>aacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagatgatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcatagaaggtaccg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25498" stop="22811"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="154" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="456" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23111" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="457" r_stop="491" r_length="35" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E277457" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>491</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277457" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23111"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATAGAAGGTACCG</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGATGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E203734" ref_strand="+" ref_description="SGN-E203734 [cLEC-17-M5]">
      <seq>tctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25486" stop="22821"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25186" g_stop="25159" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="142" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="444" r_length="302" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23121" g_length="25"/>
          <reference_exon_boundary r_type="cDNA" r_start="445" r_stop="469" r_length="25" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E203734" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E203734" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25186" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23121"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCATA</genome_strand>
        <mrna_strand>TCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E366725" ref_strand="+" ref_description="SGN-E366725 [cLPT-17-K6]">
      <seq>gaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaaataatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaatcggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccaccctcggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgacttagtcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25499" stop="22822"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25199" g_stop="25159" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="155" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="457" r_length="302" r_score="0.990"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23122" g_length="24"/>
          <reference_exon_boundary r_type="cDNA" r_start="458" r_stop="481" r_length="24" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E366725" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>481</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366725" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25199" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23122"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGTCAT</genome_strand>
        <mrna_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAAATAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATCGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTCGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGTCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E287531" ref_strand="+" ref_description="SGN-E287531 [cLES-9-F3]">
      <seq>caacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgcgaccctgtgaacctcccatggggagaacttggagttgacttagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25474" stop="22825"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25174" g_stop="25159" g_length="16"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="16" r_length="16" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="17" r_stop="130" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="432" r_length="302" r_score="0.997"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583">
            <donor d_prob="1.000" d_score="0.98"/>
            <acceptor a_prob="0.988" a_score="0.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="23145" g_stop="23125" g_length="21"/>
          <reference_exon_boundary r_type="cDNA" r_start="433" r_stop="453" r_length="21" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E287531" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287531" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25174" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
          <exon e_start="23145" e_stop="23125"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGGGTATGTTCTTTCATACTAACATATAACAAAACAGATTTAAGTTGTATATGTTTACACGTAGTGTAACTAATTTACATTATACGTTTGCAGATTCAGGAAACTCATATTATTAGTTGTCTAAACAGAAACAGTCGTTCTAAGTTTTAATAGCCATGAATTATAGACTTAAGGGTAACAACCAAACCTAAACTATCACATTTTTGCGAGTTTCATACGTCAGCTATCCATTGTTCTACTTAGTACTTACATACCTAAACTGACACATTTTTGCGAGCTTCATACCTCAACTATTACTTGCTTCATATTAAAAAATACCTTGATGTTGAGTTGGCCTACATGCCTGTTGTTGATTGAGAACAAATATATGGCCAACTTGAGAGATAGTTTAGGTACAAAAAGAGAACAATGGATAGTTGAGATATGAAACTCGCGAGGAAGTGATAGTTTAAGTGTTTAATTATCATTAACTCTGAATTAAAACATGATTAATTTAGCTCATGTAGTGTCTAACATATAGTACTAGCTTGAGATACCTAGTAAACATCTAAACTATTGTTCAAAATGTGTTCTGTAATTTGTTCAGAGAACTTGGAGTTGACTTAGT</genome_strand>
        <mrna_strand>CAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGCGACCCTGTGAACCTCCCATGGGG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGAACTTGGAGTTGACTTAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E326927" ref_strand="+" ref_description="SGN-E326927 [cTOC-18-F5]">
      <seq>tctatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctccatgggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25617" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25317" g_stop="25159" g_length="159"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="159" r_length="159" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="273" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="274" r_stop="574" r_length="301" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E326927" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>575</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E326927" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25317" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCT-CCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316055" ref_strand="+" ref_description="SGN-E316055 [cTOA-23-M22]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaaccctccatgggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="522" r_length="302" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E316055" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316055" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCCTCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E729188" ref_strand="+" ref_description="SGN-E729188 [LA20BA11]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagacatccaagtcgtctccaaccgcgaccctgtgaacctcccatggggagaacttggagttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="522" r_length="302" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E729188" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>522</cumulative_length_of_scored_exons>
        <coverage percentage="0.970" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E729188" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGACATCCAAGTCGTCTCCAACCGCGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E271533" ref_strand="+" ref_description="SGN-E271533 [cLEM-23-C8]">
      <seq>cacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25556" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25256" g_stop="25159" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="98" r_length="98" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="212" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="514" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E271533" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>514</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E271533" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25256" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>CACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E252191" ref_strand="+" ref_description="SGN-E252191 [cLEG-8-P1]">
      <seq>ctgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctgttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatattgggaactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25529" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25229" g_stop="25159" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="0.986"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="185" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="186" r_stop="491" r_length="306" r_score="0.974"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E252191" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>487</cumulative_length_of_scored_exons>
        <coverage percentage="0.957" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E252191" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25229" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATA-T--G-ACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>CTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTGTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATTGGGAACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291059" ref_strand="+" ref_description="SGN-E291059 [cLET-8-I5]">
      <seq>gctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccagagagtctttgattcttacttcaagccgggtggcactgatggcatctctgtcgatggaaaagtcatccaaatcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25216" g_stop="25159" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="172" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="474" r_length="302" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E291059" ref_strand="+">
        <total_alignment_score>0.979</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="0.965" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291059" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25216" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCAGAGAGTCTTTGATTCTTACTTCAAGCCGGGTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAATCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293767" ref_strand="+" ref_description="SGN-E293767 [cLET-21-L10]">
      <seq>gctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25216" g_stop="25159" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="172" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="474" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E293767" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>474</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25216" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E728892" ref_strand="+" ref_description="SGN-E728892 [LA19BB12]">
      <seq>ctgttattctcttaaagaccaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgacggaaaagtcatccaagaagactacaaccgtgaccctgtgaacctcccatggggagaacttggagttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25515" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="0.965"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E728892" ref_strand="+">
        <total_alignment_score>0.985</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E728892" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>CTGTTATTCTCTTAAAGACCAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGACGGAAAAGTCATCCAAGAAGACTACAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E293757" ref_strand="+" ref_description="SGN-E293757 [cLET-21-F10]">
      <seq>ctgtaattcttttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25515" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25215" g_stop="25159" g_length="57"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="57" r_length="57" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="58" r_stop="171" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="172" r_stop="473" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E293757" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="0.990" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E293757" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25215" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>CTGTAATTCTTTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297134" ref_strand="+" ref_description="SGN-E297134 [cLET-29-E21]">
      <seq>tgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25214" g_stop="25159" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="56" r_length="56" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="170" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="472" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297134" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>472</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297134" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25214" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318862" ref_strand="+" ref_description="SGN-E318862 [cTOB-11-E7]">
      <seq>taattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacatcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25512" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25212" g_stop="25159" g_length="54"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="54" r_length="54" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="168" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="470" r_length="302" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E318862" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>470</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318862" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25212" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACATCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E357195" ref_strand="+" ref_description="SGN-E357195 [cLHT-17-N22]">
      <seq>tcttaaagaacaatggctgctctatcagtagccaacacttctcttaaggctaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctcagctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtcttcaaccgtgaccctgtgaacctcccatggggagaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25506" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25206" g_stop="25159" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="0.979"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="464" r_length="302" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E357195" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E357195" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25206" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TCTTAAAGAACAATGGCTGCTCTATCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GCTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCAGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTTCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E281894" ref_strand="+" ref_description="SGN-E281894 [cLES-2-H19]">
      <seq>tcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25506" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25206" g_stop="25159" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="48" r_length="48" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="464" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E281894" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281894" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25206" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E366109" ref_strand="+" ref_description="SGN-E366109 [cLPT-15-G20]">
      <seq>ttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaaataatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaatcggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccaccctcggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25504" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25204" g_stop="25159" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="160" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="462" r_length="302" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E366109" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>462</cumulative_length_of_scored_exons>
        <coverage percentage="0.977" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366109" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25204" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAAATAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATCGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTCGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282119" ref_strand="+" ref_description="SGN-E282119 [cLES-4-K7]">
      <seq>taaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25503" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25203" g_stop="25159" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="45" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="159" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="461" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E282119" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="0.962" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282119" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25203" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E284830" ref_strand="+" ref_description="SGN-E284830 [cLER-19-M15]">
      <seq>taaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggaggtgacttattcata</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25503" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25203" g_stop="25159" g_length="45"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="45" r_length="45" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="46" r_stop="159" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="160" r_stop="461" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E284830" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>461</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E284830" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25203" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E725939" ref_strand="+" ref_description="SGN-E725939 [LA08DC01]">
      <seq>agaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcaccaagtcgtcatccaccgtgaccctgtgaacctcccatggggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25500" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25200" g_stop="25159" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="156" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="457" r_length="301" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E725939" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>458</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E725939" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25200" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>AGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCA-CCAAGTCGTCATCCACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E366723" ref_strand="+" ref_description="SGN-E366723 [cLPT-17-K2]">
      <seq>gaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaaataatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaatcggaaggaacttcttgaggtgttggcatggcacaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccaccctcggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25499" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25199" g_stop="25159" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="155" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="457" r_length="302" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E366723" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>457</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E366723" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25199" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAAATAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATCGGAAGGAACTTCTTGAGGTGTTGGCATGGCACAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTCGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E283162" ref_strand="+" ref_description="SGN-E283162 [cLER-17-M10]">
      <seq>gaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtccatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctgccatggggagaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25499" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25199" g_stop="25159" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="155" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="457" r_length="302" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E283162" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>457</cumulative_length_of_scored_exons>
        <coverage percentage="0.989" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283162" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25199" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCCATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTGCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290261" ref_strand="+" ref_description="SGN-E290261 [cLET-5-J23]">
      <seq>gaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25499" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25199" g_stop="25159" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="41" r_length="41" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="42" r_stop="155" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="156" r_stop="457" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E290261" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>457</cumulative_length_of_scored_exons>
        <coverage percentage="0.966" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290261" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25199" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E297618" ref_strand="+" ref_description="SGN-E297618 [cLET-28-E19]">
      <seq>tgcaagaaaaacaaaggctgctttttcagtttccaacacttctcttaaggttaacgaacaaaggattctctgaattctctggcttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagacgatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgttattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggtgggcactgatggcatctttgtcgatggaaaagcgattcaagtcgtctccaaccgtgacccttggaacctcccatggggagaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25502" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="49" r_length="40" r_score="0.875"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.88"/>
            <acceptor a_prob="0.974" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="164" r_length="115" r_score="0.974"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="165" r_stop="466" r_length="302" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E297618" ref_strand="+">
        <total_alignment_score>0.971</total_alignment_score>
        <cumulative_length_of_scored_exons>456</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E297618" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAAC-AACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>AACAAAGGCTGCTTTTTCAGTTTCCAACACTTCTCTTAAG....................................................................................................................GTTAACGAACAAAGGATTCTCTGAATTCTCTGGCTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGACGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTTATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTGGGCACTGATGGCATCTTTGTCGATGGAAAAGCGATTCAAGTCGTCTCCAACCGTGACCCTTGGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E200578" ref_strand="+" ref_description="SGN-E200578 [cLEB-8-P4]">
      <seq>gcacgagagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25502" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="10" r_stop="49" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="163" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="164" r_stop="465" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E200578" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>456</cumulative_length_of_scored_exons>
        <coverage percentage="0.968" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E200578" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279696" ref_strand="+" ref_description="SGN-E279696 [cLER-5-F23]">
      <seq>aatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttggagttgact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25495" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25195" g_stop="25159" g_length="37"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="37" r_length="37" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="38" r_stop="151" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="152" r_stop="453" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E279696" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279696" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25195" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>AATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E202823" ref_strand="+" ref_description="SGN-E202823 [cLEB-1-C8]">
      <seq>gcacgagctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25488" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25194" g_stop="25159" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="0.833"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="150" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="452" r_length="302" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E202823" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202823" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25194" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GCACGAGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E325652" ref_strand="+" ref_description="SGN-E325652 [cTOC-15-I17]">
      <seq>tggctgttctctcaatagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgaaaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagctgaaagtggctatcaatggatttggaagaattggaacgaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcgagcaagcctctcaccttctcgaatatgactccacccttggcatctttgatgctgacgtcaagccagttggcactgatggcatctctgtcgatagaaaaatcatccgagtcgactccaaccgtgaccctgtgaacctcccatgggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25493" stop="23429"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25193" g_stop="25159" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="35" r_length="35" r_score="0.943"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="149" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="150" r_stop="451" r_length="302" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E325652" ref_strand="+">
        <total_alignment_score>0.976</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E325652" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25193" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>TGGCTGTTCTCTCAATAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAAAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGCTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAACGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCGAGCAAGCCTCTCACCTTCTCGAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCAGTTGGCACTGATGGCATCTCTGTCGATAGAAAAATCATCCGAGTCGACTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E355575" ref_strand="+" ref_description="SGN-E355575 [cLHT-19-K6]">
      <seq>gctgctctctcagtagccaacacttctcttaaggctaacaacaaaggtttctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctcagctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggggagaacttgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25491" stop="23426"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25191" g_stop="25159" g_length="33"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="33" r_length="33" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="34" r_stop="147" r_length="114" r_score="0.974"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23729" g_length="302"/>
          <reference_exon_boundary r_type="cDNA" r_start="148" r_stop="449" r_length="302" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E355575" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E355575" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25191" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23729"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</genome_strand>
        <mrna_strand>GCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GCTAACAACAAAGGTTTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCAGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318026" ref_strand="+" ref_description="SGN-E318026 [cTOA-30-H24]">
      <seq>tatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25611" stop="23430"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25311" g_stop="25159" g_length="153"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="153" r_length="153" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="267" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23730" g_length="301"/>
          <reference_exon_boundary r_type="cDNA" r_start="268" r_stop="568" r_length="301" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E318026" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>568</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E318026" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25311" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23730"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGG</genome_strand>
        <mrna_strand>TATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316286" ref_strand="+" ref_description="SGN-E316286 [cTOA-23-H22]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatcttggatgctgacgtcaagccggtgggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctccatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="23430"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23730" g_length="301"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="521" r_length="301" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E316286" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>521</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E316286" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23730"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATC-AATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGG</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTGGATGCTGACGTCAAGCCGGTGGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCT-CCATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E300610" ref_strand="+" ref_description="SGN-E300610 [cLET-45-B23]">
      <seq>ttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25518" stop="23432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25218" g_stop="25159" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="60" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="174" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23732" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="473" r_length="299" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E300610" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E300610" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25218" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23732"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATG</genome_strand>
        <mrna_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E285680" ref_strand="+" ref_description="SGN-E285680 [cLES-5-P1]">
      <seq>aacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25498" stop="23432"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="154" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23732" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="453" r_length="299" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E285680" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>453</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E285680" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23732"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATG</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279038" ref_strand="-" ref_description="SGN-E279038 [cLEL-4-A15](-)">
      <seq>gcacgagaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctccaaccgtgaccctgtgaacctcccat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23433"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="5" r_stop="44" r_length="40" r_score="0.950"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.95"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="158" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23733" g_length="298"/>
          <reference_exon_boundary r_type="cDNA" r_start="159" r_stop="456" r_length="298" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E279038" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="0.991" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279038" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23733"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCAT</genome_strand>
        <mrna_strand>GAGAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E257466" ref_strand="+" ref_description="SGN-E257466 [cLEG-45-L9]">
      <seq>ctgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtccatggaaaagtcatccaagtcgtctccaaccgtgaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25529" stop="23446"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25229" g_stop="25159" g_length="71"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="71" r_length="71" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="72" r_stop="185" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23746" g_length="285"/>
          <reference_exon_boundary r_type="cDNA" r_start="186" r_stop="470" r_length="285" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E257466" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>470</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E257466" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25229" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23746"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCT</genome_strand>
        <mrna_strand>CTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCCATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E365945" ref_strand="+" ref_description="SGN-E365945 [cLPT-11-L8]">
      <seq>tctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaaataatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaatcggaaggaacttcttgaggtgttggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactacaccctcggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25486" stop="23459"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25186" g_stop="25159" g_length="28"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="28" r_length="28" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="29" r_stop="142" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23759" g_length="272"/>
          <reference_exon_boundary r_type="cDNA" r_start="143" r_stop="414" r_length="272" r_score="0.985"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E365945" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>414</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E365945" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25186" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23759"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTC</genome_strand>
        <mrna_strand>TCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAAATAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATCGGAAGGAACTTCTTGAGGTGTTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTACACCCTCGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E279154" ref_strand="-" ref_description="SGN-E279154 [cLEL-4-L21](-)">
      <seq>gcacgagctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactnggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="23460"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25222" g_stop="25159" g_length="64"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="64" r_length="64" r_score="0.938"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="65" r_stop="178" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23760" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="179" r_stop="450" r_length="272" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E279154" ref_strand="-">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>449</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E279154" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25222" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23760"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACT-GGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCT</genome_strand>
        <mrna_strand>GCACGAGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTNGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E266124" ref_strand="+" ref_description="SGN-E266124 [cLEI-6-L9]">
      <seq>aactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25531" stop="23461"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25231" g_stop="25159" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="73" r_length="73" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="74" r_stop="187" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23761" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="188" r_stop="457" r_length="270" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E266124" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>457</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E266124" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25231" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23761"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</genome_strand>
        <mrna_strand>AACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E269689" ref_strand="+" ref_description="SGN-E269689 [cLEM-17-C10]">
      <seq>attctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaagttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaagaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25510" stop="23461"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25210" g_stop="25159" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="0.981"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="166" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23761" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="167" r_stop="436" r_length="270" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E269689" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E269689" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25210" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23761"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</genome_strand>
        <mrna_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAA....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAAGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E202077" ref_strand="+" ref_description="SGN-E202077 [cLEC-7-P18]">
      <seq>attctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25510" stop="23461"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25210" g_stop="25159" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="166" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23761" g_length="270"/>
          <reference_exon_boundary r_type="cDNA" r_start="167" r_stop="436" r_length="270" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E202077" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202077" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25210" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23761"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</genome_strand>
        <mrna_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280647" ref_strand="+" ref_description="SGN-E280647 [cLER-1-L12]">
      <seq>ctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcgt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25490" stop="23462"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25190" g_stop="25159" g_length="32"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="32" r_length="32" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="33" r_stop="146" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23762" g_length="269"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="415" r_length="269" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E280647" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>415</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280647" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25190" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23762"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGT</genome_strand>
        <mrna_strand>CTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282824" ref_strand="+" ref_description="SGN-E282824 [cLER-15-I24]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23463"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23763" g_length="268"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="437" r_length="268" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E282824" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282824" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23763"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCG</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290274" ref_strand="+" ref_description="SGN-E290274 [cLET-5-B10]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtcatccaagtcg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23463"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23763" g_length="268"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="437" r_length="268" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E290274" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>437</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290274" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23763"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCG</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E342352" ref_strand="+" ref_description="SGN-E342352 [cTOF-8-B2]">
      <seq>tgtaattctcttaaanacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaaagcctctcaccttctcaaatatgactccacccttggcattcttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaaagtcatccaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25514" stop="23465"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25214" g_stop="25159" g_length="56"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="0.964"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.96"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23765" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="437" r_length="268" r_score="0.977"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E342352" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E342352" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25214" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23765"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGC-AAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGG-AAAAGTCATCCAAGT</genome_strand>
        <mrna_strand>TGTAATTCTCTTAAA-NACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATTCTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAAGTCATCCAAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E288517" ref_strand="+" ref_description="SGN-E288517 [cLES-8-D4]">
      <seq>ggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatggaaaagtca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25492" stop="23472"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25192" g_stop="25159" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="34" r_length="34" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="148" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23772" g_length="259"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="407" r_length="259" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E288517" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>407</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E288517" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25192" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23772"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCA</genome_strand>
        <mrna_strand>GGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280216" ref_strand="-" ref_description="SGN-E280216 [cLEL-7-L7](-)">
      <seq>gcacgaggaacaatggctgctttctcagtagccaacacttctcttagggttaacaacaaaggattctctgcatcctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcgatgga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23479"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="48" r_length="40" r_score="0.950"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.95"/>
            <acceptor a_prob="0.974" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23779" g_length="252"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="414" r_length="252" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E280216" ref_strand="-">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>406</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280216" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23779"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGA</genome_strand>
        <mrna_strand>AACAATGGCTGCTTTCTCAGTAGCCAACACTTCTCTTAGG....................................................................................................................GTTAACAACAAAGGATTCTCTGCATCCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E268788" ref_strand="+" ref_description="SGN-E268788 [cLEM-4-B15]">
      <seq>aaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaagattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctgtcga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25563" stop="23483"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25263" g_stop="25159" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="105" r_length="105" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="106" r_stop="219" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23783" g_length="248"/>
          <reference_exon_boundary r_type="cDNA" r_start="220" r_stop="467" r_length="248" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E268788" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>467</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E268788" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25263" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23783"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGA</genome_strand>
        <mrna_strand>AAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAAGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E202767" ref_strand="+" ref_description="SGN-E202767 [cLEB-1-B6]">
      <seq>gcacgagaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25562" stop="23487"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25269" g_stop="25159" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="111" r_length="111" r_score="0.946"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="225" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23787" g_length="244"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="469" r_length="244" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E202767" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>469</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202767" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25269" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23787"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTG</genome_strand>
        <mrna_strand>GCACGAGAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E258146" ref_strand="+" ref_description="SGN-E258146 [cLEG-49-C15]">
      <seq>taaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccgggtggcactgatggcatctctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25564" stop="23487"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25264" g_stop="25159" g_length="106"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="106" r_length="106" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="107" r_stop="220" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23787" g_length="244"/>
          <reference_exon_boundary r_type="cDNA" r_start="221" r_stop="464" r_length="244" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E258146" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>464</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E258146" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25264" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23787"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTG</genome_strand>
        <mrna_strand>TAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGGTGGCACTGATGGCATCTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E282103" ref_strand="+" ref_description="SGN-E282103 [cLES-4-G1]">
      <seq>acaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25497" stop="23489"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25197" g_stop="25159" g_length="39"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="39" r_length="39" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="40" r_stop="153" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23789" g_length="242"/>
          <reference_exon_boundary r_type="cDNA" r_start="154" r_stop="395" r_length="242" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E282103" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E282103" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25197" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23789"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTC</genome_strand>
        <mrna_strand>ACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E271217" ref_strand="+" ref_description="SGN-E271217 [cLEM-5-E2]">
      <seq>tatctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatggcatc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25615" stop="23491"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25315" g_stop="25159" g_length="157"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="157" r_length="157" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="158" r_stop="271" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23791" g_length="240"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="511" r_length="240" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E271217" 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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E271217" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25315" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23791"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATC</genome_strand>
        <mrna_strand>TATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E310248" ref_strand="+" ref_description="SGN-E310248 [cTOA-1-I15]">
      <seq>atctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaagattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagttactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcactgatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25614" stop="23496"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25314" g_stop="25159" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="156" r_length="156" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="270" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23796" g_length="235"/>
          <reference_exon_boundary r_type="cDNA" r_start="271" r_stop="505" r_length="235" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E310248" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>505</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E310248" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25314" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23796"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATG</genome_strand>
        <mrna_strand>ATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAAGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTTACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E248756" ref_strand="+" ref_description="SGN-E248756 [cLEG-5-C4]">
      <seq>ttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctggtctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagcccgttggcactgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25545" stop="23497"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25245" g_stop="25159" g_length="87"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="87" r_length="87" r_score="0.989"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="88" r_stop="201" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23797" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="202" r_stop="435" r_length="234" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E248756" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>435</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E248756" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25245" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23797"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGAT</genome_strand>
        <mrna_strand>TTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGGTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCCGTTGGCACTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277283" ref_strand="-" ref_description="SGN-E277283 [cLEL-3-B14](-)">
      <seq>tcggcacgagaattctctggtttgagaacctcatttgctgttccatttgggaggaaaactggtgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagccggttggcacttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25321" stop="23497"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25031" g_stop="24929" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="102" r_length="102" r_score="0.883"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="24030" g_stop="23801" g_length="230"/>
          <reference_exon_boundary r_type="cDNA" r_start="103" r_stop="332" r_length="230" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E277283" ref_strand="-">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>333</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277283" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25031" e_stop="24929"/>
          <exon e_start="24030" e_stop="23801"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCAC</genome_strand>
        <mrna_strand>TCGGCAC-GAGAATTCTCTGGTTTGAGAACCTCATTTGCTGTTCCATTTGGGAGGAAAACTGGTGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277830" ref_strand="-" ref_description="SGN-E277830 [cLEL-5-E8](-)">
      <seq>gcacgagctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgcttgacgtcaagcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25507" stop="23510"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="17" r_stop="56" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="57" r_stop="170" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23810" g_length="221"/>
          <reference_exon_boundary r_type="cDNA" r_start="171" r_stop="392" r_length="222" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E277830" ref_strand="-">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>375</cumulative_length_of_scored_exons>
        <coverage percentage="0.957" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277830" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23810"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGC-TGACGTCAAGCC</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTTGACGTCAAGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292500" ref_strand="+" ref_description="SGN-E292500 [cLET-16-F6]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="23511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23811" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="176" r_stop="395" r_length="220" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E292500" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>395</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292500" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E283206" ref_strand="+" ref_description="SGN-E283206 [cLER-17-D6]">
      <seq>ggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25492" stop="23511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25192" g_stop="25159" g_length="34"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="34" r_length="34" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="35" r_stop="148" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23811" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="149" r_stop="368" r_length="220" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E283206" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>368</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E283206" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25192" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</genome_strand>
        <mrna_strand>GGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E324136" ref_strand="+" ref_description="SGN-E324136 [cTOC-4-G13]">
      <seq>ccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25475" stop="23511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25175" g_stop="25159" g_length="17"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="17" r_length="17" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="18" r_stop="131" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23811" g_length="220"/>
          <reference_exon_boundary r_type="cDNA" r_start="132" r_stop="351" r_length="220" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E324136" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>351</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E324136" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25175" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23811"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</genome_strand>
        <mrna_strand>CCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292847" ref_strand="+" ref_description="SGN-E292847 [cLET-11-I10]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctgacgtc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23515"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23815" g_length="216"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="385" r_length="216" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E292847" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>385</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292847" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23815"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTC</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E287539" ref_strand="+" ref_description="SGN-E287539 [cLES-9-H5]">
      <seq>cacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctttgatgctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25556" stop="23519"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25256" g_stop="25159" g_length="98"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="98" r_length="98" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="99" r_stop="212" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23819" g_length="212"/>
          <reference_exon_boundary r_type="cDNA" r_start="213" r_stop="424" r_length="212" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E287539" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>424</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287539" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25256" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23819"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGA</genome_strand>
        <mrna_strand>CACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E281417" ref_strand="-" ref_description="SGN-E281417 [cLEL-1-E19](-)">
      <seq>gcacgagaacttacacaattgttcttcatcaacacataaactgtactgctgttgctgcaattctcttaaagaacaatggctgctctctcactaaccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtcgaaaagactcacctcttgatgtcattgccatcaatgacactggtggagtcaagcatgcctctcaccttctcaaatatgactccacccttggcatctttgatgctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25562" stop="23520"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25269" g_stop="25159" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="111" r_length="111" r_score="0.901"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.96"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="225" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23820" g_length="211"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="436" r_length="211" r_score="0.986"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E281417" ref_strand="-">
        <total_alignment_score>0.968</total_alignment_score>
        <cumulative_length_of_scored_exons>436</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281417" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25269" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23820"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTG</genome_strand>
        <mrna_strand>GCACGAGAACTTACACAATTGTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGCAATTCTCTTAAAGAACAATGGCTGCTCTCTCACTAACCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTCGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGAGTCAAGCATGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E200167" ref_strand="+" ref_description="SGN-E200167 [cLEB-7-F5]">
      <seq>gcacgaggaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23527"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="48" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23827" g_length="204"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="366" r_length="204" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E200167" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>358</cumulative_length_of_scored_exons>
        <coverage percentage="0.978" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E200167" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23827"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTT</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E312367" ref_strand="+" ref_description="SGN-E312367 [cTOA-5-L11]">
      <seq>atctatcatccataatctcatccattttcttccctccattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgaatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaagatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaaaactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttctcaaatatgactccacccttggcatctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25614" stop="23528"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25314" g_stop="25159" g_length="156"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="156" r_length="156" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="157" r_stop="271" r_length="115" r_score="0.982"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23828" g_length="203"/>
          <reference_exon_boundary r_type="cDNA" r_start="272" r_stop="474" r_length="203" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E312367" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>473</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E312367" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25314" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23828"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATG-ATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTT</genome_strand>
        <mrna_strand>ATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGAATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAAGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAAACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E296848" ref_strand="+" ref_description="SGN-E296848 [cLET-26-D18]">
      <seq>ttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctcttcaccttctcaaatatgactccaccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25504" stop="23537"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25204" g_stop="25159" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="46" r_length="46" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="47" r_stop="160" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23837" g_length="194"/>
          <reference_exon_boundary r_type="cDNA" r_start="161" r_stop="355" r_length="195" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E296848" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>354</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E296848" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25204" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23837"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTC-TCACCTTCTCAAATATGACTCCACCCT</genome_strand>
        <mrna_strand>TTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTTCACCTTCTCAAATATGACTCCACCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E208730" ref_strand="+" ref_description="SGN-E208730 [cLEC-51-A5]">
      <seq>attctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtaaaaaagactcacctcttgatgtcattgccatcaatgacactggtggtgtcaagcaagcctctcaccttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25510" stop="23556"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25210" g_stop="25159" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="166" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23856" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="167" r_stop="341" r_length="175" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E208730" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>341</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E208730" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25210" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23856"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTC</genome_strand>
        <mrna_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAAAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280218" ref_strand="-" ref_description="SGN-E280218 [cLEL-7-L23](-)">
      <seq>gcacgaggaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaacggattctctgacttctctggtttgagaacctcatcagctgttccatttggcaggaaaactaatgatgatctgctctctgttgctggcttacagacctctgctattggaggaaggacgagcaagaggatagtatctgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcctggtagaaaagactcacctcttgatgacattgccatcaatgacactggtggtgtcaagcaagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23567"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="48" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="0.947"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.94"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23867" g_length="164"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="326" r_length="164" r_score="0.970"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E280218" ref_strand="-">
        <total_alignment_score>0.960</total_alignment_score>
        <cumulative_length_of_scored_exons>318</cumulative_length_of_scored_exons>
        <coverage percentage="0.975" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280218" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23867"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGC</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAACGGATTCTCTGACTTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGCAGGAAAACTAATGATGATCTGCTCTCTGTTGCTGGCTTACAGACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGACGAGCAAGAGGATAGTATCTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCCTGGTAGAAAAGACTCACCTCTTGATGACATTGCCATCAATGACACTGGTGGTGTCAAGCAAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E291191" ref_strand="+" ref_description="SGN-E291191 [cLET-8-P24]">
      <seq>ttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcattgccatcaatgacactg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25518" stop="23583"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25218" g_stop="25159" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="60" r_length="60" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="61" r_stop="174" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23883" g_length="148"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="322" r_length="148" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E291191" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E291191" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25218" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23883"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTG</genome_strand>
        <mrna_strand>TTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E281416" ref_strand="-" ref_description="SGN-E281416 [cLEL-1-E17](-)">
      <seq>gcacgagaacttccacaatttttcttcatcaacacataaactgtactgctgttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25562" stop="23599"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25269" g_stop="25159" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="111" r_length="111" r_score="0.946"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="112" r_stop="225" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23899" g_length="132"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="357" r_length="132" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E281416" ref_strand="-">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>357</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281416" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25269" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATT</genome_strand>
        <mrna_strand>GCACGAGAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E290585" ref_strand="+" ref_description="SGN-E290585 [cLES-20-J7]">
      <seq>aacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttgatgtca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25498" stop="23601"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="40" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="41" r_stop="154" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23901" g_length="130"/>
          <reference_exon_boundary r_type="cDNA" r_start="155" r_stop="284" r_length="130" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E290585" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>284</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E290585" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCA</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E341950" ref_strand="+" ref_description="SGN-E341950 [cTOF-9-P14]">
      <seq>gctgtaattctcttaaagaacatggctgctctctcagtagccaacaccttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaaattggaaggaacttcttgaggtgctggcatggtagaaaagactcacctcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25516" stop="23607"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25216" g_stop="25159" g_length="58"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="58" r_length="58" r_score="0.948"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.94"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="59" r_stop="172" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23907" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="173" r_stop="297" r_length="125" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E341950" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>296</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E341950" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25216" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23907"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACA-CTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAG-AATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTG</genome_strand>
        <mrna_strand>GCTGTAATTCTCTTAAAGAAC-ATGGCTGCTCTCTCAGTAGCCAACACCTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E281519" ref_strand="-" ref_description="SGN-E281519 [cLEL-1-F5](-)">
      <seq>gcacgagctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaacttcttgaggtgctggcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25488" stop="23628"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25194" g_stop="25159" g_length="36"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="36" r_length="36" r_score="0.833"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="37" r_stop="150" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23928" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="151" r_stop="253" r_length="103" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E281519" ref_strand="-">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>253</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E281519" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25194" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23928"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATG</genome_strand>
        <mrna_strand>GCACGAGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280217" ref_strand="-" ref_description="SGN-E280217 [cLEL-7-L21](-)">
      <seq>gcacgaggaacaatggctgctctctcagtagccaacacttctcttaaggttagcaacaacggattctctgacttctctggtttgagaacctcatcagctgttccatttggcatgaaaactaatgatgatctgttctctgttgctggcttacaaacctctgctattggaggaaggaagagcaagaggatagtatctgaggcatagttgaaagtggctatcactggatttggaagaattggaaggaacttcttgaggtgctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23632"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="48" r_length="40" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="49" r_stop="162" r_length="114" r_score="0.947"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.96"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23932" g_length="99"/>
          <reference_exon_boundary r_type="cDNA" r_start="163" r_stop="261" r_length="99" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E280217" ref_strand="-">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>253</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280217" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23932"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGG</genome_strand>
        <mrna_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAGCAACAACGGATTCTCTGACTTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGCATGAAAACTAATGATGATCTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAGCAAGAGGATAGTATCTGAGGCATAGTTGAAAGTGGCTATCACTGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E740277" ref_strand="+" ref_description="SGN-E740277 [LC20DB09]">
      <seq>gttattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="0.982"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23945" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="255" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E740277" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>255</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E740277" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</genome_strand>
        <mrna_strand>GTTATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E736860" ref_strand="+" ref_description="SGN-E736860 [LC07CD03]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23945" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="255" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E736860" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>255</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736860" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E736930" ref_strand="+" ref_description="SGN-E736930 [LC07DD03]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23945" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="255" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E736930" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>255</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E736930" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738236" ref_strand="+" ref_description="SGN-E738236 [LC12DE11]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23945" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="255" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738236" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>255</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738236" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E739370" ref_strand="+" ref_description="SGN-E739370 [LC17AG02]">
      <seq>gtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaaggaactt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25513" stop="23645"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25213" g_stop="25159" g_length="55"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="55" r_length="55" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="56" r_stop="169" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23945" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="170" r_stop="255" r_length="86" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E739370" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>255</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E739370" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25213" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23945"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</genome_strand>
        <mrna_strand>GTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E289872" ref_strand="+" ref_description="SGN-E289872 [cLET-9-N20]">
      <seq>cttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcacctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacaagaggatagtaactgacgcaaagttgaaagtggctatcaatggatttggaagaattggaagga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="23649"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25169" g_stop="25159" g_length="11"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="11" r_length="11" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="12" r_stop="125" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23949" g_length="82"/>
          <reference_exon_boundary r_type="cDNA" r_start="126" r_stop="207" r_length="82" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E289872" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>207</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E289872" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25169" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23949"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGA</genome_strand>
        <mrna_strand>CTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCACCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGACGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E280126" ref_strand="-" ref_description="SGN-E280126 [cLEL-7-E17](-)">
      <seq>gaattcggcacgaggaataatggctgctctctcagtagccaacacttctcttaggttaacatcagaggattctctgaattctctggcttgagaacctcatcatctgttccattggtgaggaaaactaatgatgatttgttctctgttgctggcttacgaacctctgctattggaggaaggaagaacaagaggatagtaactgaggcaaagttgaaagtggctatcaatggatttggaagaattggaagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25501" stop="23650"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25198" g_stop="25159" g_length="40"/>
          <reference_exon_boundary r_type="cDNA" r_start="16" r_stop="54" r_length="39" r_score="0.950"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.95"/>
            <acceptor a_prob="0.974" a_score="0.92"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="55" r_stop="168" r_length="114" r_score="0.939"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23950" g_length="81"/>
          <reference_exon_boundary r_type="cDNA" r_start="169" r_stop="249" r_length="81" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E280126" ref_strand="-">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>235</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E280126" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="25198" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23950"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGG</genome_strand>
        <mrna_strand>AATAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTT-AG....................................................................................................................GTTAACATCAGAGGATTCTCTGAATTCTCTGGCTTGAGAACCTCATCATCTGTTCCATTGGTGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACGAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327655" ref_strand="+" ref_description="SGN-E327655 [cTOC-20-H22]">
      <seq>ttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaaggaagaacagagatagtactgaggaaagtgaagtgctatcatggattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25344" stop="23666"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25168" g_stop="25159" g_length="10"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="10" r_length="10" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="11" r_stop="124" r_length="114" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="1.00"/>
            <acceptor a_prob="0.996" a_score="0.88"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23965" g_length="66"/>
          <reference_exon_boundary r_type="cDNA" r_start="125" r_stop="182" r_length="58" r_score="0.864"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E327655" ref_strand="+">
        <total_alignment_score>0.950</total_alignment_score>
        <cumulative_length_of_scored_exons>190</cumulative_length_of_scored_exons>
        <coverage percentage="1.044" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E327655" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25168" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23965"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTT</genome_strand>
        <mrna_strand>TTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAAC-AGA-GATAGT-ACTGAGG-AAAG-TG-AAGT-GCTATC-ATGGATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E207281" ref_strand="+" ref_description="SGN-E207281 [cLEC-30-E2]">
      <seq>cataatctcatccattttcttccctgcattcattcattcataaacttccacaatttttcttcatcaacacataaactgtactgctgttgctcgaattatcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctttgctattggaggaaggaagaacaagacgatagttactgatgcaaagttgaaagtggctatcaatggatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25604" stop="23666"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25304" g_stop="25159" g_length="146"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="146" r_length="146" r_score="0.973"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="0.98"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="147" r_stop="260" r_length="114" r_score="0.991"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898">
            <donor d_prob="0.989" d_score="0.98"/>
            <acceptor a_prob="0.996" a_score="0.94"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="24030" g_stop="23966" g_length="65"/>
          <reference_exon_boundary r_type="cDNA" r_start="261" r_stop="325" r_length="65" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E207281" ref_strand="+">
        <total_alignment_score>0.975</total_alignment_score>
        <cumulative_length_of_scored_exons>325</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E207281" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25304" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
          <exon e_start="24030" e_stop="23966"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCTGTGAGTATTATTATACAACTACTACTATTATTGCATCATAAGATAGTTTAAGTTCTGTGCACCGACGATGTAAAACATTTATACGCTATCAGGTCATAGCCTTTAATTAGTATTGATAGTGTAAAAAATCTAACATTGTCGGTGTATACAACTTGAATCCTTACAAAGTTTAAGGAAAAAAGAATATGTATCCTTCATGTCTTGTTGTGATCAAGATGTGCTCTAAATTTTTTTTCGGGGGAAAAAAGACAGATATACCCCCGAATAATCGTAAATGGTATGCAGATACACTCCGTCATACTTTTGAGACATTAGTGCCCCTACTATCCAAAAACTAGAGCATATATGACCTTCACTCTAACGGAAGACTAAATAGGGACACGTGGCGCAATCTTATATGTTGATAAATGTCGGATCGATGGATAAGATTGTGACATGTGTATGTCTGTTAATATAAAGGGTATATATGCTCTAGTTTTTGAACAGTAGGGGCAACAATGTTCCAAAAGTATGACGGAGGGTACTTGCATACCACTTACGATAGTTCAAGGGTATATTTGTCCTTTTTCCTTTTCTTTCCCTTGTATGTTCTACCTTTTCTATGTTGAAAGCAGCCTCCATACAAAGATCTTTATGCAAATTCATCAATTTGATAAGTTTTAAGGAAGATCAAACACTATAAAATGAATGATAACATTGTATAAACATCTAAATTGTATTTCCTTCCTATGTTATGTTGCTCGGACTGTCCAAAATTGTTGTTGCACCCATGTCGGGTTCTCCCAAAATGTACTACTTTTGGAGTATCCGACATGCACTTGTCAGCATTTTTTGACGAGTCTGAGTAACATAGCTTCCAACGATGTTTCTTGTGGTAATTGGATTTAATGAAATGTAGATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATT</genome_strand>
        <mrna_strand>CATAATCTCATCCATTTTCTTCCCTGCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTCGAATTATCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTTTGCT..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATTGGAGGAAGGAAGAACAAGACGATAGTTACTGATGCAAAGTTGAAAGTGGCTATCAATGGATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292642" ref_strand="+" ref_description="SGN-E292642 [cLET-11-O11]">
      <seq>gttgctgtaattctcttaaagaacaatggctgctctctcagtagccaacacttctcttaaggttaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttgttctctgttgctggcttacaaacctctgctattggaggaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25519" stop="24622"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25219" g_stop="25159" g_length="61"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="61" r_length="61" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24929" g_length="114"/>
          <reference_exon_boundary r_type="cDNA" r_start="62" r_stop="175" r_length="114" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E292642" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>175</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292642" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25219" e_stop="25159"/>
          <exon e_start="25042" e_stop="24929"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT</genome_strand>
        <mrna_strand>GTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E287325" ref_strand="+" ref_description="SGN-E287325 [cLES-15-H11]">
      <seq>attctcttaaagaacaatggctgctctctcagtagccaacacttctcttaagggtaacaacaaaggattctctgaattctctggtttgagaacctcatcagctgttccatttgggaggaaaactaatgatgatttggtctctgttgctggcttacaaacc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="25510" stop="24635"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="25210" g_stop="25159" g_length="52"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116">
            <donor d_prob="0.994" d_score="1.00"/>
            <acceptor a_prob="0.974" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="25042" g_stop="24935" g_length="108"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="160" r_length="108" r_score="0.981"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E287325" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>160</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E287325" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="25210" e_stop="25159"/>
          <exon e_start="25042" e_stop="24935"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAGGTACCTCATTCACTCGTCCTGCATTCCATCTTATTATTAATTGATCCTGACTTGTTCGGGACTGAGACGTACGTAGTTATGAATATGTTTGTTGTTTTCTTAAAACTGATGGACAGGTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACC</genome_strand>
        <mrna_strand>ATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG....................................................................................................................GGTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGGTCTCTGTTGCTGGCTTACAAACC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E277215" ref_strand="-" ref_description="SGN-E277215 [cLEL-3-A9]">
      <seq>acatacttaatgtaacctcactagtgtggtctagaagggcggagaacgaaaggtgatgtgttgcagccttacctttacctcgtgaaggtagagagactgtttctgactcagctcaatataaagtttattgttctttagtgggaattgcaacattcattaatgttgtcaaatgaagaagtcttggtccacattttgtaaattacttaggaatattgagaagaattgtataaatttgattgtaagaagaaggcaaatctacacatataatcccccccacattgtataaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="28641" stop="27774"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28341" g_stop="28058" g_length="284"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="285" r_length="285" r_score="0.930"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E277215" ref_strand="-">
        <total_alignment_score>0.930</total_alignment_score>
        <cumulative_length_of_scored_exons>284</cumulative_length_of_scored_exons>
        <coverage percentage="0.969" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E277215" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="28341" e_stop="28058"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACATACTTAATGTAACCTCACTAGTGTGGTCTGGGAGGGCGGAGGACGAAAGGTGATGTGTTGCAGCCTTACCTTTACCTCGTGAAGGTAGAGAGACTGTTTCTGACTCAGCTCAATATGAAGTTTATTGTTCTTTAGTGGGAATTGCAACATTCATTAATGTTGTCAAATGAAGAAGTCTTGGTCCACATTTTGTAAATTACTTAGGAATATTGAGAAGAATTGTATAAATTTGATTGTGAAAGAGATACAAATCTACACATATTAT-GAGTAAACATTGTATA</genome_strand>
        <mrna_strand>ACATACTTAATGTAACCTCACTAGTGTGGTCTAGAAGGGCGGAGAACGAAAGGTGATGTGTTGCAGCCTTACCTTTACCTCGTGAAGGTAGAGAGACTGTTTCTGACTCAGCTCAATATAAAGTTTATTGTTCTTTAGTGGGAATTGCAACATTCATTAATGTTGTCAAATGAAGAAGTCTTGGTCCACATTTTGTAAATTACTTAGGAATATTGAGAAGAATTGTATAAATTTGATTGTAAGAAGAAGGCAAATCTACACATATAATCCCCCCCACATTGTATA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E295160" ref_strand="+" ref_description="SGN-E295160 [cLET-20-F5]">
      <seq>gaagttgttgatgatgagtcgtggattatgggcttcttagacgtcattgacccagcgattgacagcataaagaggctcttgaatctagatcagaactcttactacaaggtaaaagagtctgcttctaatactactgctggagacgacgttgaggggagcacagaagaatcagcttctccctcctcggctaacgtcaatgacaataacatagatacaggaagtggctttgatttagatgattttatcagtgtaatgctgtctttagacccttcaaagctggaagttcagcttacaacatctcttaaggaccctccgaaaatcgccagaactactaatggggtgtggcgaccatcgacaaagactagtagaacatcaacaacactttgattttacaacaacaacgacatacttaatgtaacctcactagtgtggtctgggagggcggaggacgaaaggtgatgtgttgcagccttacctttacctcgtgaaagtagagagactgtttctgactcagctcaatatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="29044" stop="27922"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="28744" g_stop="28222" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="523" r_length="523" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E295160" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E295160" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="28744" e_stop="28222"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGTTGTTGATGATGAGTCGTGGATTATGGGCTTCTTAGACGTCATTGACCCAGCGATTGACAGCATAAAGAGGCTCTTGAATCTAGATCAGAACTCTTACTACAAGGTAAAAGAGTCTGCTTCTAATACTACTGCTGGAGACGACGTTGAGGGGAGCACAGAAGAATCAGCTTCTCCCTCCTCGGCTAACGTCAATGACAATAACATAGATACAGGAAGTGGCTTTGATTTAGATGATTTTATCAGTGTAATGCTGTCTTTAGACCCTTCAAAGCTGGAAGTTCAGCTTACAACATCTCTTAAGGACCCTCCGAAAATCGCCAGAACTACTAATGGGGTGTGGCGACCATCGACAAAGACTAGTAGAACATCAACAACACTTTGATTTTACAACAACAACGACATACTTAATGTAACCTCACTAGTGTGGTCTGGGAGGGCGGAGGACGAAAGGTGATGTGTTGCAGCCTTACCTTTACCTCGTGAAGGTAGAGAGACTGTTTCTGACTCAGCTCAATATG</genome_strand>
        <mrna_strand>GAAGTTGTTGATGATGAGTCGTGGATTATGGGCTTCTTAGACGTCATTGACCCAGCGATTGACAGCATAAAGAGGCTCTTGAATCTAGATCAGAACTCTTACTACAAGGTAAAAGAGTCTGCTTCTAATACTACTGCTGGAGACGACGTTGAGGGGAGCACAGAAGAATCAGCTTCTCCCTCCTCGGCTAACGTCAATGACAATAACATAGATACAGGAAGTGGCTTTGATTTAGATGATTTTATCAGTGTAATGCTGTCTTTAGACCCTTCAAAGCTGGAAGTTCAGCTTACAACATCTCTTAAGGACCCTCCGAAAATCGCCAGAACTACTAATGGGGTGTGGCGACCATCGACAAAGACTAGTAGAACATCAACAACACTTTGATTTTACAACAACAACGACATACTTAATGTAACCTCACTAGTGTGGTCTGGGAGGGCGGAGGACGAAAGGTGATGTGTTGCAGCCTTACCTTTACCTCGTGAAAGTAGAGAGACTGTTTCTGACTCAGCTCAATATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E321798" ref_strand="+" ref_description="SGN-E321798 [cTOB-25-J23]">
      <seq>tggcatgtatggggagtttttgaagctaatctaggaaatattgatcaaggaaggaaacttctaacaatagggcacatggtgaatcctagagatcctgttcttctccaatcacttggtttgatagaatacaagaactccagtgcaaaccttgcacgagttctattccgaagagcgtctcaactagatccaaggcatcaaccagtttggattgcttggggttggatggagtggaaagaaggaaacatttccacagctcgagaactataccagaaggctctatcgatcaactcaacaactgaaagtgctgcgcgttgtcttcaggcttggggtgttttggagcaaagagctggaaatctatcagctgctcgaagactatttagatcgtctctgaacataaactctcagagctatataacatggatgacatgggcaaatttagaggaagatcaaggtaactctatccgtgcagaggaaattcgtaacctctactttcaacagcgtactgaagttgttgatgatgagtcgtggattatgggcttcttagacgtcattgacccagcgattgacagcataaagaggctcttgaatctagatcagaactcttactacaaggtaaaagagtctgcttctaatactactgctggagacgacgttgaggggagcacagaagaatcagcttctccctcctcggctaaacgtcatga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="30087" stop="28245"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="29787" g_stop="29578" g_length="210"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="210" r_length="210" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="29577" i_stop="29345" i_length="233">
            <donor d_prob="0.986" 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="29344" g_stop="29234" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="211" r_stop="321" r_length="111" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="29233" i_stop="29036" i_length="198">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29035" g_stop="28859" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="322" r_stop="498" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="28858" i_stop="28751" i_length="108">
            <donor d_prob="0.999" d_score="1.00"/>
            <acceptor a_prob="0.850" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="28750" g_stop="28550" g_length="201"/>
          <reference_exon_boundary r_type="cDNA" r_start="499" r_stop="700" r_length="202" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E321798" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>699</cumulative_length_of_scored_exons>
        <coverage percentage="0.993" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E321798" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="29787" e_stop="29578"/>
          <exon e_start="29344" e_stop="29234"/>
          <exon e_start="29035" e_stop="28859"/>
          <exon e_start="28750" e_stop="28550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGCATGTATGGGGAGTTTTTGAAGCTAATCTAGGAAATATTGATCAAGGAAGGAAACTTCTAACAATAGGGCACATGGTGAATCCTAGAGATCCTGTTCTTCTCCAATCACTTGGTTTGATAGAATACAAGAACTCCAGTGCAAACCTTGCACGAGTTCTATTCCGAAGAGCGTCTCAACTAGATCCAAGGCATCAACCAGTTTGGATTGTAAGACCTTTCGTTTCAATAGTAAATGCTATAGAATATCGAATAAACTCATTTACTAAAAGACTCACTCGAATCGTTCAAGCTCTTGACATGGTTAATAGATGATGAAAGACTAAAAGAACTGAATACATTTGATGAACCTCATCACTGCCTTTTCCATATGTTCTCAACAGTCTTAAGATAATAAAACTTGTAACTTTAACAACTGAATACCTAACTTGGTACTGATTTAGGCTTGGGGTTGGATGGAGTGGAAAGAAGGAAACATTTCCACAGCTCGAGAACTATACCAGAAGGCTCTATCGATCAACTCAACAACTGAAAGTGCTGCGCGTTGTCTTCAGGTAATGCTCATTTCTAATAGATAGAGTAAGTTTCTAGTTTGCTTTTCGTAAGACATTTTGATGCAAATTGTGGAGGTTAGTCCAAACTCGTAACTCTGGCTTGCAGCTTAGTCTGTCCTTTGTTCCAACAAGTAGTATATTCTGGTTATATGTAATCTTCTCCACATAGGAAATGTACTAAAGAGTTGTTTACTATAGGCTTGGGGTGTTTTGGAGCAAAGAGCTGGAAATCTATCAGCTGCTCGAAGACTATTTAGATCGTCTCTGAACATAAACTCTCAGAGCTATATAACATGGATGACATGGGCAAATTTAGAGGAAGATCAAGGTAACTCTATCCGTGCAGAGGAAATTCGTAACCTCTACTTTCAACAGGTATATGAGTCATTTCCTTCTATGACCACATTTCAAGCATTGTTATACATCAGTGTTCCATATAGCTGCTCTTCTCCCTAACATCACTAGACGTTTTTGTTGACACAGCGTACTGAAGTTGTTGATGATGAGTCGTGGATTATGGGCTTCTTAGACGTCATTGACCCAGCGATTGACAGCATAAAGAGGCTCTTGAATCTAGATCAGAACTCTTACTACAAGGTAAAAGAGTCTGCTTCTAATACTACTGCTGGAGACGACGTTGAGGGGAGCACAGAAGAATCAGCTTCTCCCTCCTCGGCT-AACGTC</genome_strand>
        <mrna_strand>TGGCATGTATGGGGAGTTTTTGAAGCTAATCTAGGAAATATTGATCAAGGAAGGAAACTTCTAACAATAGGGCACATGGTGAATCCTAGAGATCCTGTTCTTCTCCAATCACTTGGTTTGATAGAATACAAGAACTCCAGTGCAAACCTTGCACGAGTTCTATTCCGAAGAGCGTCTCAACTAGATCCAAGGCATCAACCAGTTTGGATT.........................................................................................................................................................................................................................................GCTTGGGGTTGGATGGAGTGGAAAGAAGGAAACATTTCCACAGCTCGAGAACTATACCAGAAGGCTCTATCGATCAACTCAACAACTGAAAGTGCTGCGCGTTGTCTTCAG......................................................................................................................................................................................................GCTTGGGGTGTTTTGGAGCAAAGAGCTGGAAATCTATCAGCTGCTCGAAGACTATTTAGATCGTCTCTGAACATAAACTCTCAGAGCTATATAACATGGATGACATGGGCAAATTTAGAGGAAGATCAAGGTAACTCTATCCGTGCAGAGGAAATTCGTAACCTCTACTTTCAACAG............................................................................................................CGTACTGAAGTTGTTGATGATGAGTCGTGGATTATGGGCTTCTTAGACGTCATTGACCCAGCGATTGACAGCATAAAGAGGCTCTTGAATCTAGATCAGAACTCTTACTACAAGGTAAAAGAGTCTGCTTCTAATACTACTGCTGGAGACGACGTTGAGGGGAGCACAGAAGAATCAGCTTCTCCCTCCTCGGCTAAACGTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E331610" ref_strand="+" ref_description="SGN-E331610 [cTOD-7-C21]">
      <seq>ttgtgctagttggctggcatgggctcaactagaggctcagttagagaatgaccgttccgctaggcagctgtttgagaaagcagttcaagccagtccgaaaaataggttcgcgtggcatgtatggggagtttttgaagctaatctaggaaatattgatcaaggaaggaaacttctaacaatagggcacatggtgaatcctagagatcctgttcttctgcaatcacttgggttgatagaatacaagaactccagtgcaaaccttgcacgagttctattccgaagagcgtctcaactagatccaaggcatcaaccagtttggattgcttggggtcggatggagtggaaagaaggaaacatttccacagctcgagaactataccagaaggctctatcgatcaactcaacaactgaaagtgctgcgcgttgtcttcaggcttggggtgttttggagcaaagagctggaaatctatcagctgctcgaagactatttagatcgtctctgaacataaactctcagagctatataacatggatgacatggg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="30637" stop="28627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="30442" g_stop="30427" g_length="16"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="16" r_length="16" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="30426" i_stop="30323" i_length="104">
            <donor d_prob="0.979" d_score="0.00"/>
            <acceptor a_prob="1.000" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="30322" g_stop="30263" g_length="60"/>
          <reference_exon_boundary r_type="cDNA" r_start="17" r_stop="76" r_length="60" r_score="0.983"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="30262" i_stop="29824" i_length="439">
            <donor d_prob="0.999" d_score="0.98"/>
            <acceptor a_prob="0.880" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="29823" g_stop="29578" g_length="246"/>
          <reference_exon_boundary r_type="cDNA" r_start="77" r_stop="322" r_length="246" r_score="0.992"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="29577" i_stop="29345" i_length="233">
            <donor d_prob="0.986" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="29344" g_stop="29234" g_length="111"/>
          <reference_exon_boundary r_type="cDNA" r_start="323" r_stop="433" r_length="111" r_score="0.991"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="29233" i_stop="29036" i_length="198">
            <donor d_prob="0.998" d_score="1.00"/>
            <acceptor a_prob="0.969" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="29035" g_stop="28927" g_length="109"/>
          <reference_exon_boundary r_type="cDNA" r_start="434" r_stop="542" r_length="109" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E331610" ref_strand="+">
        <total_alignment_score>0.992</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="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E331610" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="30442" e_stop="30427"/>
          <exon e_start="30322" e_stop="30263"/>
          <exon e_start="29823" e_stop="29578"/>
          <exon e_start="29344" e_stop="29234"/>
          <exon e_start="29035" e_stop="28927"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGTGCTAGTTGGCTGGTAAGAGTCATTCAAAAACTTTAATCTGTCTCAGCTCTTTTCGAGTGGTTTATGCACATGTCATTTCTGGATTCCTTATAGTGGTTCTGTATTATCTTTTGTAGGCATGGGCTCAACTAGAGGCTCAGTTAGAGAATAACCGTTCCGCTAGGCAGCTGTTTGAGGTTTGTATTTTCTGAAGTTGATCCTTTCCTATCATCATTGAACATTTCCTTTTGGCATATTACATGAGCAATCACTCAAAGTTGGAGTGCTTAACTCAAATTTGGCTCGGCTAGGAAGTAAACACTCTACCTTAGAAGAGTGCACATCTGGTCTCAACTGACAACTAAACACTCCAACTCGTCCAATATTCATTTGGCACATAAATTTTGGAGGTGTCTAGATGATCATTTTGTAAGTTCGACTATTCAACTGACACAATGAAGACTAGTTGAGGTGTCTAGATGTGCACTTCCCGATTTTGAGTGTTTACCTGCTAGTTGAGGCCAAGTTTTGAGTGTTTGTTCATGTATTATGAGTTTCCTTTTAATTTGATGCCTCTGTCACTTTATTTTCAATTTTGTTTATAATTCTTGTACTTGATACTCCTAAACAAAGCAGAAAGCAGTTCAAGCCAGTCCGAAAAATAGGTTCGCGTGGCATGTATGGGGAGTTTTTGAAGCTAATCTAGGAAATATTGATCAAGGAAGGAAACTTCTAACAATAGGGCACATGGTGAATCCTAGAGATCCTGTTCTTCTCCAATCACTTGGTTTGATAGAATACAAGAACTCCAGTGCAAACCTTGCACGAGTTCTATTCCGAAGAGCGTCTCAACTAGATCCAAGGCATCAACCAGTTTGGATTGTAAGACCTTTCGTTTCAATAGTAAATGCTATAGAATATCGAATAAACTCATTTACTAAAAGACTCACTCGAATCGTTCAAGCTCTTGACATGGTTAATAGATGATGAAAGACTAAAAGAACTGAATACATTTGATGAACCTCATCACTGCCTTTTCCATATGTTCTCAACAGTCTTAAGATAATAAAACTTGTAACTTTAACAACTGAATACCTAACTTGGTACTGATTTAGGCTTGGGGTTGGATGGAGTGGAAAGAAGGAAACATTTCCACAGCTCGAGAACTATACCAGAAGGCTCTATCGATCAACTCAACAACTGAAAGTGCTGCGCGTTGTCTTCAGGTAATGCTCATTTCTAATAGATAGAGTAAGTTTCTAGTTTGCTTTTCGTAAGACATTTTGATGCAAATTGTGGAGGTTAGTCCAAACTCGTAACTCTGGCTTGCAGCTTAGTCTGTCCTTTGTTCCAACAAGTAGTATATTCTGGTTATATGTAATCTTCTCCACATAGGAAATGTACTAAAGAGTTGTTTACTATAGGCTTGGGGTGTTTTGGAGCAAAGAGCTGGAAATCTATCAGCTGCTCGAAGACTATTTAGATCGTCTCTGAACATAAACTCTCAGAGCTATATAACATGGATGACATGGG</genome_strand>
        <mrna_strand>TTGTGCTAGTTGGCTG........................................................................................................GCATGGGCTCAACTAGAGGCTCAGTTAGAGAATGACCGTTCCGCTAGGCAGCTGTTTGAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................AAAGCAGTTCAAGCCAGTCCGAAAAATAGGTTCGCGTGGCATGTATGGGGAGTTTTTGAAGCTAATCTAGGAAATATTGATCAAGGAAGGAAACTTCTAACAATAGGGCACATGGTGAATCCTAGAGATCCTGTTCTTCTGCAATCACTTGGGTTGATAGAATACAAGAACTCCAGTGCAAACCTTGCACGAGTTCTATTCCGAAGAGCGTCTCAACTAGATCCAAGGCATCAACCAGTTTGGATT.........................................................................................................................................................................................................................................GCTTGGGGTCGGATGGAGTGGAAAGAAGGAAACATTTCCACAGCTCGAGAACTATACCAGAAGGCTCTATCGATCAACTCAACAACTGAAAGTGCTGCGCGTTGTCTTCAG......................................................................................................................................................................................................GCTTGGGGTGTTTTGGAGCAAAGAGCTGGAAATCTATCAGCTGCTCGAAGACTATTTAGATCGTCTCTGAACATAAACTCTCAGAGCTATATAACATGGATGACATGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E738836" ref_strand="+" ref_description="SGN-E738836 [LC15AF01]">
      <seq>actcttttggatctctggttttattttgttttaccttcaataagtaacaggatacagaggggataatcttttctatgaggaagtgcaagtcttgattttttttccatataagccttgcttcttagaatctgttgaactatcgaaaagtttgagctattcgacaccaaatttctcttagtctttgaagtttatcggcttattctttcatctccagatagaaaccgatattcaatcaccattgtattccattaagtatatgacagtgttaccaaagtgtagatacaagtaaagcaatgagtcagttttcgtttacttcttcttcgagctctaatttcactctcttctatcattctcagaatcataatccttcaaagtttcatgtttctgctccctttagaacatcccaaccatcgccttcacatcctattttacctcccttatgttcccgtgatccgtcttcctcatcaccacttcttgaagaaaagccagaaacatcacaatcttcttctaagtttgatcctcaagatacactaagttacaatgatgaagtttctgaggagatcagcactacaaagaagtccttggaagagttacttgttgttcgtaggccggtgaaggagtcttccgtggaaaatgatgatgaaaaaggggaagcagtgagtaactttgaggattctcaagagaaaaatgatattctggaagaacaaccatcttcctcatcatttccacttgatgctggccttaaaaaatttgcaaaaaaagtgccaatttttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="33930" stop="31398"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="33636" g_stop="33596" g_length="41"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="0.878"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="33595" i_stop="32430" i_length="1166">
            <donor d_prob="0.808" d_score="0.88"/>
            <acceptor a_prob="0.989" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="32429" g_stop="31698" g_length="732"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="774" r_length="732" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E738836" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>773</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E738836" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="33636" e_stop="33596"/>
          <exon e_start="32429" e_stop="31698"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATCAGT-GGATCTCTGGTTTTATTTTGTTTTACCTTCAATAGTAAGTCTCACATTTTACTTACACTTTCTCTTTTCAAATGTTGATAGCCGCAGAGGGCGGAGATAGAAGCTCAGATACTCTAGTGTTTGCTCAAATTATGTATTTTATGTTTACGAGATTTATTTAATATGTAAAAAAGTATCAAATTTAGAATCATGTTATAATGCTAAAAGTCATTGTTCTATAATTCAAAACTGATAAAATTGAAATTCTGGCTTCGCCTCTGCCGATATATATGTTCTTGTTGGTATAGATTTTGTTAAAGGTAGATAGAAAGTAGTTTGCAAGAACATACATTTTTGTTTGATATTTGAAGGTTATTCAAGTTAATTTAACTTGTATGAGATATTTAATGACATGTTCTTGGAAATTATTTGGAAGTAATTAATTTGGTTTGTGTGAGTTATCAAGCTGTGAACATTAATTTTGAAGTCTTAAAGGTGTGTGGATCATATTTCCTTTTCAAGCCCTTTTGCATAGTTTTGGTTTTATTTTGGGAAAATGCACAAGTAGCCCTTTAGACTATGGTCGAAATTCCAGAAACACATCTTAACTAAATTAAGGTCCTATTATCCCTGAACTTATTTGTTTTGTAATTTTATATCATTTTTGTCTTATGTGACACACTTCGTGACTCCACGCAATTGAGGCGTGTGAGAGATATTTGGATGCCACGGAAGCCAAAAAGGGGCACAAAATTACAAAAAAAAAAAAGTTCAGGGCTAATAGAACCTTAGTTTAGTTAAAGTGTGTTTTTGAGATTTCGGTCATAGGTGCTTGTGCATTTTTCCCTTTAGTTTAAGAAGGCATTATGTACTCTTTATTGAAAGCCGACCATTTCATCCAAAAGTTTAAGTCGTGGATCATGTTTCTTTTTTTTTTAGCCCTTTTGCATAATTTTCTTAGTTTGAGAAGGGAATACATACTCTGTGTTGAAGTACGACTATCTCATTCAAAAGCTTAAGCTGTTAGAGGTGAATAGAGATGTATTGATTGTATTATTTTATCGTCTTCCAATATGCACCTAATATGTGGCCTAGTTTCTTGCTACGGGTGAAAACACGTAGAAATTCTTTTTGATAATGGGTGTCAGTGAGACTCGAACCAAGAACCTCCGCCTGCCCCATGTTTAAGTGAGTGATCATTTTGTGTTGTTTATGTTTCAGAGTAACAGGATACAGAGGGGATAATCTTTTCTATGAGGAAGTGCAAGTCTTGATTTTTTTTCCATATAAGCCTTGCTTCTTAGAATCTGTTGAACTATCGAAAAGTTTGAGCTATTCGACACCAAATTTCTCTTAGTCTTTGAAGTTTATCGGCTTATTCTTTCATCTCCAGATAGAAACCGATATTCAATCACCATTGTATTCCATTAAGTATATGACAGTGTTACCAAAGTGTAGATACAAGTAAAGCAATGAGTCAGTTTTCGTTTACTTCTTCTTCGAGCTCTAATTTCACTCTCTTCTATCATTCTCAGAATCATAATCCTTCAAAGTTTCATGTTTCTGCTCCCTTTAGAACATCCCAACCATCGCCTTCACATCCTATTTTACCTCCCTTATGTTCCCGTGATCCGTCTTCCTCATCACCACTTCTTGAAGAAAAGCCAGAAACATCACAATCTTCTTCTAAGTTTGATCCTCAAGATACACTAAGTTACAATGATGAAGTTTCTGAGGAGATCAGCACTACAAAGAAGTCCTTGGAAGAGTTACTTGTTGTTCGTAGGCCGGTGAAGGAGTCTTCCGTGGAAAATGATGATGAAAAAGGGGAAGCAGTGAGTAACTTTGAGGATTCTCAAGAGAGAAATGATATTCTGGAAGAACAACCATCTTCCTCATCATTTCCACTTGATGCTGGCCTTAAGAAATTTGCAAAAAAAGTGCCAATTTTTG</genome_strand>
        <mrna_strand>ACTCTTTTGGATCTCTGGTTTTATTTTGTTTTACCTTCAATA..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGTAACAGGATACAGAGGGGATAATCTTTTCTATGAGGAAGTGCAAGTCTTGATTTTTTTTCCATATAAGCCTTGCTTCTTAGAATCTGTTGAACTATCGAAAAGTTTGAGCTATTCGACACCAAATTTCTCTTAGTCTTTGAAGTTTATCGGCTTATTCTTTCATCTCCAGATAGAAACCGATATTCAATCACCATTGTATTCCATTAAGTATATGACAGTGTTACCAAAGTGTAGATACAAGTAAAGCAATGAGTCAGTTTTCGTTTACTTCTTCTTCGAGCTCTAATTTCACTCTCTTCTATCATTCTCAGAATCATAATCCTTCAAAGTTTCATGTTTCTGCTCCCTTTAGAACATCCCAACCATCGCCTTCACATCCTATTTTACCTCCCTTATGTTCCCGTGATCCGTCTTCCTCATCACCACTTCTTGAAGAAAAGCCAGAAACATCACAATCTTCTTCTAAGTTTGATCCTCAAGATACACTAAGTTACAATGATGAAGTTTCTGAGGAGATCAGCACTACAAAGAAGTCCTTGGAAGAGTTACTTGTTGTTCGTAGGCCGGTGAAGGAGTCTTCCGTGGAAAATGATGATGAAAAAGGGGAAGCAGTGAGTAACTTTGAGGATTCTCAAGAGAAAAATGATATTCTGGAAGAACAACCATCTTCCTCATCATTTCCACTTGATGCTGGCCTTAAAAAATTTGCAAAAAAAGTGCCAATTTTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E367261" ref_strand="+" ref_description="SGN-E367261 [cLPT-5-B19]">
      <seq>cttctcataattaaaaataattacctcgccttcatcagatctggtcgttggttgagccgcctttgcttgtgtgcatctcgattgatttatggggttgcttattgtctagctcacaagtacaggtttggagttgaaatttgaaacatagcgtatcatattttcaagcctttgatgactcagactgagacctcattttagtaactttaacgagaggttttgtttgacttattcacgtgaaatggcagagcttttcggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctccttgatagaataccttattgaaatctatttctttcccggcttaaaggaatattggtggataagtaattttggcctcgcaatggttgttctcggagaaatcataaagaagttggcaattgtgacagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="38133" stop="40321"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38432" g_stop="38479" g_length="48"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="49" r_length="49" r_score="0.896"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38480" i_stop="38630" i_length="151">
            <donor d_prob="0.778" d_score="0.90"/>
            <acceptor a_prob="0.993" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="38631" g_stop="38703" g_length="73"/>
          <reference_exon_boundary r_type="cDNA" r_start="50" r_stop="122" r_length="73" r_score="0.945"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="38704" i_stop="39606" i_length="903">
            <donor d_prob="0.000" d_score="0.92"/>
            <acceptor a_prob="0.000" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="39607" g_stop="40021" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="123" r_stop="537" r_length="415" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E367261" ref_strand="+">
        <total_alignment_score>0.984</total_alignment_score>
        <cumulative_length_of_scored_exons>536</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E367261" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38432" e_stop="38479"/>
          <exon e_start="38631" e_stop="38703"/>
          <exon e_start="39607" e_stop="40021"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTCTCTTAATT-AAAATAATTACCTCGCCTTCATCAGATCTGGTTGTTGTATGTAAATCTCCTTAATCTGTTCTTCGTTTAATCTTGCCCTCTTGGTTGAATTCATTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATTGATAATGTTTGAAGAAGAACCGTGAGAGCTAAGGGATCACTATGATATCTAAGCTTACGTAGAGTAAGAGATTGTATAAACTGATATTGGAGACGAACTGAAAATGATCTTGTGTATAATGCACGTATAGAATCTAAGTTCTGTTATGTGATGTCTTTGTTCCTGAATGGTGCTTGCATAAATTTGCAGGGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGC</genome_strand>
        <mrna_strand>CTTCTCATAATTAAAAATAATTACCTCGCCTTCATCAGATCTGGTCGTT.......................................................................................................................................................GGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTGATTTATGGGGTTGCTTATTGTCTAGCTCACAAGTACAG.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCACGTGAAATGGCAGAGCTTTTCGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTTCTCGGAGAAATCATAAAGAAGTTGGCAATTGTGACAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E548849" ref_strand="+" ref_description="SGN-E548849 [TUS-64-P20]">
      <seq>cttaattaaaataattacctcgccttcatcagatctggttgttggaaatgtcattcttaaaggatagtttcattgattctgaagcccattttgtggtgctaattgtacagagctcatcaacattttcaggtttggagttgaaatttgaaacatagcgtatcatattttcaagcctttgatgactcagactgagacctcattttagtaactttaacgagaggttttgtttgacttattcgcgtgaaatggcagagctttttggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctccttgatagaataccttattgaaatctatttctttcccggcttaaaggaatattggtggataagtaattttggcctcgcaatggttgtcctcggagaaatcataaggaagttggcaattgtgacagcaggccaagccttcactcatctaataaaggtttatcatgaggaaaatcatcagttggttacgaatgggatctatagatttgtccggcatcccggttactgtggtttcttcatctggtctgttggtacacaaataatgctatgtaatccaatatcaaccattgcattcacagttgttgtgtggaaattcttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="38137" stop="40511"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38437" g_stop="38479" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="43" r_length="43" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38480" i_stop="39520" i_length="1041">
            <donor d_prob="0.778" 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="39521" g_stop="40211" g_length="691"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="734" r_length="691" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E548849" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>734</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E548849" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38437" e_stop="38479"/>
          <exon e_start="39521" e_stop="40211"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTTGTATGTAAATCTCCTTAATCTGTTCTTCGTTTAATCTTGCCCTCTTGGTTGAATTCATTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATTGATAATGTTTGAAGAAGAACCGTGAGAGCTAAGGGATCACTATGATATCTAAGCTTACGTAGAGTAAGAGATTGTATAAACTGATATTGGAGACGAACTGAAAATGATCTTGTGTATAATGCACGTATAGAATCTAAGTTCTGTTATGTGATGTCTTTGTTCCTGAATGGTGCTTGCATAAATTTGCAGGGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTC</genome_strand>
        <mrna_strand>CTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E543269" ref_strand="+" ref_description="SGN-E543269 [TUS-64-P24]">
      <seq>cttaattaaaataattacctcgccttcatcagatctggttgttggaaatgtcattcttaaaggatagtttcattgattctgaagcccattttgtggtgctaattgtacagagctcatcaacattttcaggtttggagttgaaatttgaaacatagcgtatcatattttcaagcctttgatgactcagactgagacctcattttagtaactttaacgagaggttttgtttgacttattcgcgtgaaatggcagagctttttggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctccttgatagaataccttattgaaatctatttctttcccggcttaaaggaatattggtggataagtaattttggcctcgcaatggttgtcctcggagaaatcataaggaagttggcaattgtgacagcaggccaagccttcactcatctaataaaggtttatcatgaggaaaatcatcagttggttacgaatgggatctatagatttgtccggcatcccggttactgtggtttcttcatctggtctgttggtacacaaataatgctatgttatccaatatcaaccattgcattcacagttgttgtgtggaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="38137" stop="40505"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38437" g_stop="38479" g_length="43"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="43" r_length="43" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38480" i_stop="39520" i_length="1041">
            <donor d_prob="0.778" 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="39521" g_stop="40205" g_length="685"/>
          <reference_exon_boundary r_type="cDNA" r_start="44" r_stop="728" r_length="685" r_score="0.999"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E543269" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>728</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E543269" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38437" e_stop="38479"/>
          <exon e_start="39521" e_stop="40205"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTTGTATGTAAATCTCCTTAATCTGTTCTTCGTTTAATCTTGCCCTCTTGGTTGAATTCATTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATTGATAATGTTTGAAGAAGAACCGTGAGAGCTAAGGGATCACTATGATATCTAAGCTTACGTAGAGTAAGAGATTGTATAAACTGATATTGGAGACGAACTGAAAATGATCTTGTGTATAATGCACGTATAGAATCTAAGTTCTGTTATGTGATGTCTTTGTTCCTGAATGGTGCTTGCATAAATTTGCAGGGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAA</genome_strand>
        <mrna_strand>CTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTTATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E303799" ref_strand="+" ref_description="SGN-E303799 [cLEX-4-O22]">
      <seq>ttaattaaaataattacctcgccttcatcagatctggttgttggaaatgtcattcttaaaggatagtttcattgattctgaagcccattttgtggtgctaattgtacagagctcatcaacattttcaggtttggagttgaaatttgaaacatagcgtatcatattttcaagcctttgatgactcaaactgagacctcattttagtaactttaaccagaggttttgtttgacttattcgcgtgaaatggcagagctttttggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctgcttgatggaataccttattgaaatctatttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="38138" stop="40226"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38438" g_stop="38479" g_length="42"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="42" r_length="42" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="38480" i_stop="39520" i_length="1041">
            <donor d_prob="0.778" 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="39521" g_stop="39926" g_length="406"/>
          <reference_exon_boundary r_type="cDNA" r_start="43" r_stop="448" r_length="406" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E303799" ref_strand="+">
        <total_alignment_score>0.990</total_alignment_score>
        <cumulative_length_of_scored_exons>448</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E303799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38438" e_stop="38479"/>
          <exon e_start="39521" e_stop="39926"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTTGTATGTAAATCTCCTTAATCTGTTCTTCGTTTAATCTTGCCCTCTTGGTTGAATTCATTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATTGATAATGTTTGAAGAAGAACCGTGAGAGCTAAGGGATCACTATGATATCTAAGCTTACGTAGAGTAAGAGATTGTATAAACTGATATTGGAGACGAACTGAAAATGATCTTGTGTATAATGCACGTATAGAATCTAAGTTCTGTTATGTGATGTCTTTGTTCCTGAATGGTGCTTGCATAAATTTGCAGGGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTC</genome_strand>
        <mrna_strand>TTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTT.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAAACTGAGACCTCATTTTAGTAACTTTAACCAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTGCTTGATGGAATACCTTATTGAAATCTATTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E316439" ref_strand="+" ref_description="SGN-E316439 [cTOA-25-D18]">
      <seq>ttttattttgtgcatcttcggtatgttttcgtatttgaatgaactgaatttgttgttttctgtttttgtttctgttcttcttttgtggatttagggttgagccgcctttgcttgtgtgcatctcgattaatttatggggtagcttatcgtctagctcacaggtacaggttcagtttagtgttgctgctgatactcgaactggggatttttcagtttttttttcaactcactaggtcattcccttgggcggggtgaattttatagggcaatttatggtgttcgtgaacctatggtatatctatcaacttagatattttgggtagatactccgttgaattaatctaatattatctgttgacattgatgctacaaaaaaagaagcttaaatggtgcacttgatgctaaaaaaaagttcgttgttttaatggtgcagcgatgttataaaaattctatatcttcatctgccattgtggactcatgatagaactcaattttcgagtcatttactaaatgatactgatgatatctgtgctgtagatgttgatttctaggataacttttttattaagttgcttttatctcaattagttcgttaaagaatgtgatagttaaatagttaataacttgttatttttcatgatttagtgatgggagtgttaaatcacaagttatcaagtgtagtgaaaatgtgcctgaatccggttagtttggataggtggtatgttgattgattgatttttactttattagagagtcaatatctannagctctgtattgaccccaaatcccatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="38237" stop="39631"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38537" g_stop="39331" g_length="795"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="793" r_length="793" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E316439" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>795</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E316439" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38537" e_stop="39331"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATT</genome_strand>
        <mrna_strand>TTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGGTATGTTGATTGATTGATTTTTACTTTATTAGAGAGT-CAATATCTANNAGCTCTGTATTGACCCC-AAATCCCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E699136" ref_strand="+" ref_description="SGN-E699136 [FA08DB06]">
      <seq>gtcattcttaaaggatagtttcattgattctgaagcccattttgtggtgctaattgtacagagctcatcaacattttcagagctttttggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctccttgatagaataccttattgaaatctatttctttcccggcttaaaggaatattggtggataagtaattttggcctcgcaatggttgtcctcggagaaatcataaggaagttggcaattgtgacagcaggccaagccttcactcatctaataaaggtttatcatgaggaaaatcatcagttggttacgaatgggatctatagatttgtccggcatcccggttactgtggtttcttcatctggtctgttggtacacaaataatgctatgtaatccaatatcaaccattgcatt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="39227" stop="40486"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39527" g_stop="39606" g_length="80"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="80" r_length="80" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="39607" i_stop="39729" i_length="123">
            <donor d_prob="0.548" d_score="1.00"/>
            <acceptor a_prob="0.731" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="39730" g_stop="40186" g_length="457"/>
          <reference_exon_boundary r_type="cDNA" r_start="81" r_stop="537" r_length="457" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E699136" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>537</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E699136" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39527" e_stop="39606"/>
          <exon e_start="39730" e_stop="40186"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATT</genome_strand>
        <mrna_strand>GTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAG...........................................................................................................................AGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E324487" ref_strand="+" ref_description="SGN-E324487 [cTOC-9-A13]">
      <seq>tggagttgaaatttgaaacatagcgtatcatattttcaagcctttgatgactcagactgagacctcattttagtaactttaacgagaggttttgtttgacttattcgcgtgaaatggcagagctttttggatatacagcatgcagacaattattgcaaatgttcatttcaattatattcttccatgtttccgagtacattctggcacttgtctttcatgggaagtcgaatgtatcttttaagtcgcttttgataagcaaacattatgtactagcaatgttttgctccttgatagaataccttattgaaatctatttctttcccggcttaaaggaatattggtggataagtaattttggcctcgcaatggttgtcctcggagaaatcataaggaagttggcaattgtgacagcaggccaagccttcactcatctaataaaggtttatcatgaggaaaatcatcagttggttacgaatgggatctatagatttgtccggcat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="39310" stop="40409"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39610" g_stop="40109" g_length="500"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="500" r_length="500" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E324487" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>500</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324487" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39610" e_stop="40109"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCAT</genome_strand>
        <mrna_strand>TGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E543262" ref_strand="+" ref_description="SGN-E543262 [TUS-64-P20](-)">
      <seq>taaggaagttgcaaattgtgacagcaggccaagccttcactcatctaataaaggtttatcatgaggaaaatcatcagttggttacgaatgggatctatagatttgtccggcatcccggttactgtggtttcttcatctggtctgttggtacacaaataatgctatgtaatccaatatcaaccattgcattcacagttgttgtgtggaaattcttctcgggaaggataccttacgaggagtttttcctcaagcagttctttggttctgactacgaagattatatgagaaaagttccttctggtattccacttgtgaggtgattatatcctcttcagtgctctatatattcatgcctaacgtcatctgctcatcggtgctgagataacactgtttatgaattttatcttcttagacactctttacagttttcataacatgaagttcgccagaaaaaggttcctcctagatataacttctgaggtgatgcttctattaacccttgtatagcgcgtttatcttatttgtatcatcatgttttcgtcgtatcatgtctttgttaagacttaggtaaactgttcttgtggggagctgtaagttataactgtatttgtatttatggcttgatgggacagtgtttttatcatactcttaaggagaagaaaggctttgtaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="39697" stop="40970"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="39997" g_stop="40664" g_length="668"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="668" r_length="668" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="671" polyA_stop="695"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E543262" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>668</cumulative_length_of_scored_exons>
        <coverage percentage="0.961" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E543262" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="39997" e_stop="40664"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGAAAGGCTTT</genome_strand>
        <mrna_strand>TAAGGAAGTTGCAAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGAAAGGCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E548850" ref_strand="+" ref_description="SGN-E548850 [TUS-64-P24](-)">
      <seq>tcatcagttggttacgaatgggatctatagatttgtccggcatcccggttactgtggtttcttcatccggtctgttggtacacaaataatgctatgtaatccaatatcaacctttgcattcacagttgttgtgtggaaattcttctcgggaaggataccttacgaggagtttttcctcaagcagttctttggttctgactacgaagattatatgagaaaagttccttctggtattccacttgtgaggtgattatatcctcttcagtgctctatatattcatgcctaacgtcatctgctcatcggtgctgagataacactgtttatgaattttatcttcttagacactctttacagttttcataacatgaagttcgccagaaaaaggttcctcctagatataacttctgaggtgatgcttctattaacccttgtatagcgcgtttatcttatttgtatcatcatgttttcgtcgtatcatgtctttgttaagacttaggtaaactgttcttgtggggagctgtaagttataactgtatttgtatttatggcttgatgggacagtgtttttatcatactcttaaggagaaga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="39767" stop="40956"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="40067" g_stop="40656" g_length="590"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="590" r_length="590" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E548850" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>590</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E548850" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="40067" e_stop="40656"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGA</genome_strand>
        <mrna_strand>TCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCCGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCTTTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E538938" ref_strand="+" ref_description="SGN-E538938 [TUS-58-H1]">
      <seq>taggccgaatccatctcaattttcttttcttctgatgaaaattaagaatgttgagtgggtctcggtgtaattttcattgcagtgctcaccaatttgccaccattttagctgcttctacactgacctcagaatcttctttcaaaaattttagaatcagattgaggagcaggaacagtaatagttcttgtttgagcaataaagtttgtgattttggggtcaattgtgttcaacccaaatcttcagatacccaaagctctttgctttctgaaactttgagccaatctggaacagatgaggagcctccatcagaaagattgccaattcttacaggcgggatagtagctctggggaaatttgatgcactccatattggtcaccgcgagcttgcaattcaagcagcaaagagaggaattccatttcttctttcatttgttgggatggcggaagtacttggatgggaaccaagggctcccattgttgctgaatgtgatcgcaaaaggattctttcgtcttgggctccttattgcggtagtataatgccaagggaactccagatagatttttcgaaagttcgatatcttacgccttgtcagtttgtggagaagctttccaaagagctgggagtacgaggagttgttgctggcgagaattatcgttttggatatagagctgctggtgatgcatcagaccttgtgaagctctgtgaggagtatggattagaggcttatataatcaattctgtcatggacacaaatcaaatttctggagacttgaactctaaagacggtaaagagagagggcaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="44094" stop="49407"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="44394" g_stop="44670" g_length="277"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="277" r_length="277" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="44671" i_stop="46528" i_length="1858">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.609" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46529" g_stop="46581" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="278" r_stop="330" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46582" i_stop="47668" i_length="1087">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="47669" g_stop="47804" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="466" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="47805" i_stop="48682" i_length="878">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.846" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="48683" g_stop="48858" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="642" r_length="176" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.950" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="48946" g_stop="49107" g_length="162"/>
          <reference_exon_boundary r_type="cDNA" r_start="643" r_stop="804" r_length="162" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E538938" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>804</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538938" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44394" e_stop="44670"/>
          <exon e_start="46529" e_stop="46581"/>
          <exon e_start="47669" e_stop="47804"/>
          <exon e_start="48683" e_stop="48858"/>
          <exon e_start="48946" e_stop="49107"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAGGTAATTTGTTGTAATTTTAATCGTAAATTTAGTGATTTTGGGTAATTTTGAGGTATTTATAGTAGATTCTTGTTTGAGCAGTGCAATTAGGGATTTGTTGAACCCAAATGTTCATATAACCAAAGCTCTTTATTTTCTGAAACTTTGAGGTAATTTATTGTAATCTGAGCAGTAAATTTAGTGATTTTTGGGGTAATTTTGAGGTTTCTATTGTAGATTCTTGTTTGAGGTAATGAAATTAGTGATTTTCGGCTAATTTTGAAATATTTATCGCAGATTCTTGTTTGAGCAATAAAAATTAGTGATTTATTGAACCCAACTGTTCATATAACCAAAGCTCTTTATTTTCTGGAACTTTGAGGTAATTTATTGTAATCTGAACAGTAAATTTAGTGATTTTTGGGGGTTATTTTGAGGTTTTTATTGTAAATTCTTGTTTGAGTAATGAAATTAGTGATTTTTGGGTAATTTTGATTTATTTATCATAGATCCTTGTTTGACCAATTTAGGGTCAATTGTGTTTGACCCAAATCTTTAGAGAGTTAAAGTTGTTCACTTTCTGGAAGTTTGATGTAATTTATCATACTCTTAGCAGTAAGTGGTAATTTATTGTAACTTATCTTCTTTGAACGGTGACTATAGTGATTTGTGGGGTAATTTGAGGTATTTATCATAATGTTCTTGCTTGAGTGGTAAAATGTTGTTATTTTGGGATTTGTTTTCATCAATGGTGTACAACCTAAAGCTCTTAACTTTCTGAAAGTTTGAGGTAATTCAACATATCTGTTATTGTTTGAGCATGAAATTGAGTGATTTATGCCCTCAGGGCTTTAGTCAAAGTGGTAAGAGCCCAATACGTGACGTTGGGTTAGGCGCACAACACGGGTTAGAACAGTGACACAGTCAAAAGCCTGGTATTTAAGTGTGGTTAGGGTAGAGGGGCGGGCCTGTCATTGGGCGAGTTTTGAACTGTGCACCGCTAGCCGTTGGGGATTTTTCGGTTATCAAAAGAATAAAAAATTGAGTGGTTCTGGGGGCTGTATTATCAGTTGTGTTCAACCTGAATATTTAGATTCCCAATGTTTATTGCATTTTAATAGTTTGAGGTAAATCTTTTATTTCCCCCTTAAAACCTTTTGTCATTGAAAAAACAAATATAGAAAAGGAAGCTCTTTTGTTAATCCTTGATTTGTAGGCTGTAATTGCGGAAAATGGAATGGGTGAATGGAAGGTTGGAAGCAGACCTTTATAAATGCAATAAGATGAAAGGGGAAAGTAAGTTAAAACTATAAGTTTGGATCACACTTTTGACGTCAACAATATTTAAAGTTTATTGGAATATCATATAAATATGGGCAGGTATGCCTTTCTGCTTACTAAACTATGGTGTGTTGACTTTTTATTGTAGATCTAAAATAAATAGATAATGTTATTTATCTCTTAAGTGTTTAAAGTTTTAGATGAGATGATTCACACACTTTAACTGGGCAACAGAGTAGAGAGTAGAAGGCCCCATGTTCGAGTCTTGTTTCCAATCATCTAACAAAATTGTTACGCATGCTTGGCTCAATAGAAAGAATCAGGTGCTGCACAAGAGAGCATGTTGTGACCTAAAATAAATAAATAAATAAGAGTGGCTTCCCTTTAATAATATGAGTTCTTAGATGAGACGGTTACACATTTAAATAGTTTCATCTGGACAGAGTATTTGGGATAGTTTTTGTTTTATGTTTAAATGAAGCTTACAAAGGTCTAAGAGCTTTTCATCCATTGCATTGACATTGTAATGCCATTTTGTATTCAAGTATGACTCTCCTTAGAATCTCAATGCTAAATCTGTGTTCTATTTCATGTAAAGCCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAGGTTTGCTCGTATCCATATACTACTAAGTGATAAAATTATCAAACAATATTTCATGTATGCTGAATTTATATTAATACCCATTTTCATTTATTCTAACTCATGAAGTTTTTTCAATGATTAAATGCTACGTAGATGCCTTGGTAGTTGTTGTCAGCCATTCTTTATGTCATAATCTTTGTTGCATTGCTATATGGCTCTTATGCCTATTCTTTCCTTTTGTAATTTCTTTTATTTTTCTCTTCCTGGTTACTAAAGAAAATTTAGGAAATAGGTGTCAAGATTTGGCCATTTCTTTTAGTGTACATATTTATATGTCTGTGTACGTCAGTCTTCAGTTATACTGCAAGGTCAAAGAACAGCCCTTAGTATCACAGCTTAAAAACCCTGTAAAAACTGTTGAAATATGTTCCAATACATGAGTCATCACAAAGAGAAATATTGTCCATTCACTCATCAATTTGTTTTGTTAATACTTCAGACCTGATCTTTCAACATACTTTTTACTTTATTTTTGTATAAGAAATAAAGTTTTGATGGGACTTCAACTCCTATCTCTTCTCTCTCTTATTTTTTTTATTTTTTTTTAAAGAAAAACTCCTATCTCTTCTCTGAAGTTCAAGTGTTTGATCCTTCTTTTCAACTGGAGCAATTTAGCCCCTGTAAGTGATGTTATTCCTCTTGTAGATTTCATTAGCTCCTTGTCTTTGGCTTAACAGCCTTGGTCATTTAGAGAAATGGCTCAATGCTCTATCAGTAGTTTTTTTTGTATCTAGGAGCTTTCCCTTTTTCTCCTTTGTTCTCATTCAGCATCTTCTTGATGCCAGTCAATATGACAATTAATTCATAAAAAAAAAACTTTACTTTGTATAAGAAGATCAGGGGTAATCTAGCCGTGAATAGTTGAATGGTCAATCTGCAAGTTTGTTCTAAATTTACTTAGGACCTACAATTACTTTCTTCAAAGTTTTACTTCTAATTGTTGCTTATCATAAAAGAAATAAAGAGAGTTTCAATTCCACTTGTTACAATTGCATTGTAAATGAGAAGCAAATAGAGGATTCTCAATTATTATTTTTCGTTTCAATAGGCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAGGTATAACTTCTGTTGTCTCTTATGTTTTACGCTGCTGTCATAGAATGTTAAATAGAGAAATATTATCTCCTCGAAATACCAGAAAAGGACAGAAGGATGAACTTTGTCATGACTCGACTCTCACTGCTTCACCCAATCCTGTAATAGTACCTAGGATCAACTTTGAATTCTGAAAATACAAAAGGAAAGAGGATCATCACATCAGAGAGTTTTATCTTGCATTCTCTTAGTGTATGCAAGTCTTAACTTGTAGCAATATTCCACCCTAGCTCCTCTGATTTAGCATAACTCTATGGACCCGGTTGACACTCTTTCTCCAAAGCACTAGATAGTAACATTCTTGAGTTTAGGAATTTCTGTTAATAGGATGATCAATCAGAATATGTACAAAGAAGGAAGAAAATATATCCATATATTTTAGTTCATTTAAGTTTTAACGAAAAGCATAAAATAAAGAAATCAATCTCCACATCAGTATATTTTCCGACAGGAAAACTTAAGTTAATGTCCTCTATTCTTTTCTTCACTGCTTTTTGCGACAAGTGAAAGTTTGTGATGATTCCTTATAGCTTTTTGCTGTATCTTGTCCTTCATCTAAAATTCAAAGGATGTCCTTATCAACATGTTATACAATCTTGATTTGCTCCTTGGAAATAAAATATTTTCAAACGTTATTCTACTCAAGTAGTATATAGGATTAGTCATGGTTTAGAAAATTTGGTGTTTGAAGCTGGAAGGTGTTTACATCTGTTGAGTGTATCCTCCTAACCTTACTCAAGCTTACTGAGAAGTTCCTTTTTTGGTTAGTAGTCTTTATGAAATGCCATATCATGAAATGAGAAATAATATTTGTGAGCATGTGCATATTTTCAACCCAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTGGTATGTTGTAACATCCTAACTTGATATAGAGATTCCAATATAAACTAATAAAAGATAAAAAAGATGATGATGTCTTGATGACCTCAGGCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAG</genome_strand>
        <mrna_strand>TAGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG.......................................................................................GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E538856" ref_strand="+" ref_description="SGN-E538856 [TUS-58-F1]">
      <seq>taggccgaatccatctcaattttcttttcttctgatgaaaattaagaatgttgagtgggtctcggtgtaattttcattgcagtgctcaccaatttgccaccattttagctgcttctacactgacctcagaatcttctttcaaaaattttagaatcagattgaggagcaggaacagtaatagttcttgtttgagcaataaagtttgtgattttggggtcaattgtgttcaacccaaatcttcagatacccaaagctctttgctttctgaaactttgagccaatctggaacagatgaggagcctccatcagaaagattgccaattcttacaggcgggatagtagctctggggaaatttgatgcactccatattggtcaccgcgagcttgcaattcaagcagcaaagagaggaattccatttcttctttcatttgttgggatggcggaagtacttggatgggaaccaagggctcccattgttgctgaatgtgatcgcaaaaggattctttcgtcttgggctccttattgcggtagtataatgccaagggaactccagatagatttttcgaaagttcgatatcttacgccttgtcagtttgtggagaagctttccaaagagctgggagtacgaggagttgttgctggcgagaattatcgttttggatatagagctgctggtgatgcatcagaccttgtgaagctctgtgaggagtatggattagaggcttatataatcaattctgtcatggacacaaatcaaatttctgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="44094" stop="49369"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="44394" g_stop="44670" g_length="277"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="277" r_length="277" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="44671" i_stop="46528" i_length="1858">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.609" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46529" g_stop="46581" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="278" r_stop="330" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46582" i_stop="47668" i_length="1087">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="47669" g_stop="47804" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="331" r_stop="466" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="47805" i_stop="48682" i_length="878">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.846" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="48683" g_stop="48858" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="467" r_stop="642" r_length="176" r_score="1.000"/>
        </exon>
        <intron i_serial="4">
          <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.950" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="5">
          <gDNA_exon_boundary g_start="48946" g_stop="49069" g_length="124"/>
          <reference_exon_boundary r_type="cDNA" r_start="643" r_stop="766" r_length="124" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E538856" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>766</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538856" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44394" e_stop="44670"/>
          <exon e_start="46529" e_stop="46581"/>
          <exon e_start="47669" e_stop="47804"/>
          <exon e_start="48683" e_stop="48858"/>
          <exon e_start="48946" e_stop="49069"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAGGTAATTTGTTGTAATTTTAATCGTAAATTTAGTGATTTTGGGTAATTTTGAGGTATTTATAGTAGATTCTTGTTTGAGCAGTGCAATTAGGGATTTGTTGAACCCAAATGTTCATATAACCAAAGCTCTTTATTTTCTGAAACTTTGAGGTAATTTATTGTAATCTGAGCAGTAAATTTAGTGATTTTTGGGGTAATTTTGAGGTTTCTATTGTAGATTCTTGTTTGAGGTAATGAAATTAGTGATTTTCGGCTAATTTTGAAATATTTATCGCAGATTCTTGTTTGAGCAATAAAAATTAGTGATTTATTGAACCCAACTGTTCATATAACCAAAGCTCTTTATTTTCTGGAACTTTGAGGTAATTTATTGTAATCTGAACAGTAAATTTAGTGATTTTTGGGGGTTATTTTGAGGTTTTTATTGTAAATTCTTGTTTGAGTAATGAAATTAGTGATTTTTGGGTAATTTTGATTTATTTATCATAGATCCTTGTTTGACCAATTTAGGGTCAATTGTGTTTGACCCAAATCTTTAGAGAGTTAAAGTTGTTCACTTTCTGGAAGTTTGATGTAATTTATCATACTCTTAGCAGTAAGTGGTAATTTATTGTAACTTATCTTCTTTGAACGGTGACTATAGTGATTTGTGGGGTAATTTGAGGTATTTATCATAATGTTCTTGCTTGAGTGGTAAAATGTTGTTATTTTGGGATTTGTTTTCATCAATGGTGTACAACCTAAAGCTCTTAACTTTCTGAAAGTTTGAGGTAATTCAACATATCTGTTATTGTTTGAGCATGAAATTGAGTGATTTATGCCCTCAGGGCTTTAGTCAAAGTGGTAAGAGCCCAATACGTGACGTTGGGTTAGGCGCACAACACGGGTTAGAACAGTGACACAGTCAAAAGCCTGGTATTTAAGTGTGGTTAGGGTAGAGGGGCGGGCCTGTCATTGGGCGAGTTTTGAACTGTGCACCGCTAGCCGTTGGGGATTTTTCGGTTATCAAAAGAATAAAAAATTGAGTGGTTCTGGGGGCTGTATTATCAGTTGTGTTCAACCTGAATATTTAGATTCCCAATGTTTATTGCATTTTAATAGTTTGAGGTAAATCTTTTATTTCCCCCTTAAAACCTTTTGTCATTGAAAAAACAAATATAGAAAAGGAAGCTCTTTTGTTAATCCTTGATTTGTAGGCTGTAATTGCGGAAAATGGAATGGGTGAATGGAAGGTTGGAAGCAGACCTTTATAAATGCAATAAGATGAAAGGGGAAAGTAAGTTAAAACTATAAGTTTGGATCACACTTTTGACGTCAACAATATTTAAAGTTTATTGGAATATCATATAAATATGGGCAGGTATGCCTTTCTGCTTACTAAACTATGGTGTGTTGACTTTTTATTGTAGATCTAAAATAAATAGATAATGTTATTTATCTCTTAAGTGTTTAAAGTTTTAGATGAGATGATTCACACACTTTAACTGGGCAACAGAGTAGAGAGTAGAAGGCCCCATGTTCGAGTCTTGTTTCCAATCATCTAACAAAATTGTTACGCATGCTTGGCTCAATAGAAAGAATCAGGTGCTGCACAAGAGAGCATGTTGTGACCTAAAATAAATAAATAAATAAGAGTGGCTTCCCTTTAATAATATGAGTTCTTAGATGAGACGGTTACACATTTAAATAGTTTCATCTGGACAGAGTATTTGGGATAGTTTTTGTTTTATGTTTAAATGAAGCTTACAAAGGTCTAAGAGCTTTTCATCCATTGCATTGACATTGTAATGCCATTTTGTATTCAAGTATGACTCTCCTTAGAATCTCAATGCTAAATCTGTGTTCTATTTCATGTAAAGCCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAGGTTTGCTCGTATCCATATACTACTAAGTGATAAAATTATCAAACAATATTTCATGTATGCTGAATTTATATTAATACCCATTTTCATTTATTCTAACTCATGAAGTTTTTTCAATGATTAAATGCTACGTAGATGCCTTGGTAGTTGTTGTCAGCCATTCTTTATGTCATAATCTTTGTTGCATTGCTATATGGCTCTTATGCCTATTCTTTCCTTTTGTAATTTCTTTTATTTTTCTCTTCCTGGTTACTAAAGAAAATTTAGGAAATAGGTGTCAAGATTTGGCCATTTCTTTTAGTGTACATATTTATATGTCTGTGTACGTCAGTCTTCAGTTATACTGCAAGGTCAAAGAACAGCCCTTAGTATCACAGCTTAAAAACCCTGTAAAAACTGTTGAAATATGTTCCAATACATGAGTCATCACAAAGAGAAATATTGTCCATTCACTCATCAATTTGTTTTGTTAATACTTCAGACCTGATCTTTCAACATACTTTTTACTTTATTTTTGTATAAGAAATAAAGTTTTGATGGGACTTCAACTCCTATCTCTTCTCTCTCTTATTTTTTTTATTTTTTTTTAAAGAAAAACTCCTATCTCTTCTCTGAAGTTCAAGTGTTTGATCCTTCTTTTCAACTGGAGCAATTTAGCCCCTGTAAGTGATGTTATTCCTCTTGTAGATTTCATTAGCTCCTTGTCTTTGGCTTAACAGCCTTGGTCATTTAGAGAAATGGCTCAATGCTCTATCAGTAGTTTTTTTTGTATCTAGGAGCTTTCCCTTTTTCTCCTTTGTTCTCATTCAGCATCTTCTTGATGCCAGTCAATATGACAATTAATTCATAAAAAAAAAACTTTACTTTGTATAAGAAGATCAGGGGTAATCTAGCCGTGAATAGTTGAATGGTCAATCTGCAAGTTTGTTCTAAATTTACTTAGGACCTACAATTACTTTCTTCAAAGTTTTACTTCTAATTGTTGCTTATCATAAAAGAAATAAAGAGAGTTTCAATTCCACTTGTTACAATTGCATTGTAAATGAGAAGCAAATAGAGGATTCTCAATTATTATTTTTCGTTTCAATAGGCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAGGTATAACTTCTGTTGTCTCTTATGTTTTACGCTGCTGTCATAGAATGTTAAATAGAGAAATATTATCTCCTCGAAATACCAGAAAAGGACAGAAGGATGAACTTTGTCATGACTCGACTCTCACTGCTTCACCCAATCCTGTAATAGTACCTAGGATCAACTTTGAATTCTGAAAATACAAAAGGAAAGAGGATCATCACATCAGAGAGTTTTATCTTGCATTCTCTTAGTGTATGCAAGTCTTAACTTGTAGCAATATTCCACCCTAGCTCCTCTGATTTAGCATAACTCTATGGACCCGGTTGACACTCTTTCTCCAAAGCACTAGATAGTAACATTCTTGAGTTTAGGAATTTCTGTTAATAGGATGATCAATCAGAATATGTACAAAGAAGGAAGAAAATATATCCATATATTTTAGTTCATTTAAGTTTTAACGAAAAGCATAAAATAAAGAAATCAATCTCCACATCAGTATATTTTCCGACAGGAAAACTTAAGTTAATGTCCTCTATTCTTTTCTTCACTGCTTTTTGCGACAAGTGAAAGTTTGTGATGATTCCTTATAGCTTTTTGCTGTATCTTGTCCTTCATCTAAAATTCAAAGGATGTCCTTATCAACATGTTATACAATCTTGATTTGCTCCTTGGAAATAAAATATTTTCAAACGTTATTCTACTCAAGTAGTATATAGGATTAGTCATGGTTTAGAAAATTTGGTGTTTGAAGCTGGAAGGTGTTTACATCTGTTGAGTGTATCCTCCTAACCTTACTCAAGCTTACTGAGAAGTTCCTTTTTTGGTTAGTAGTCTTTATGAAATGCCATATCATGAAATGAGAAATAATATTTGTGAGCATGTGCATATTTTCAACCCAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTGGTATGTTGTAACATCCTAACTTGATATAGAGATTCCAATATAAACTAATAAAAGATAAAAAAGATGATGATGTCTTGATGACCTCAGGCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGG</genome_strand>
        <mrna_strand>TAGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG.......................................................................................GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E278841" ref_strand="+" ref_description="SGN-E278841 [cLER-2-D14]">
      <seq>aggccgaatccatctcaattttcttttcttctgatgaaaattaagaatgttgagtgggtctcggtgtaattttcattgcagtgctcaccaatttgccaccattttagctgcttctacactgacctcagaatcttctttcaaaaattttagaatcagattgaggagcaggaacagtaatagttcttgtttgagcaataaagtttgtgattttggggtcaattgtgttcaacccaaatcttcagatacccaaagctctttgctttctgaaactttgagccaatctggaacagatgaggagcctccatcagaaagattgccaattcttacaggcgggatagtagctctggggaaatttgatgcactccatattggtcaccgcgagcttgcaattcaagcagcaaagagaggaattccatttcttctttcatttgttgggatggcggaagtacttggatgggaaccaagggctccca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="44095" stop="48105"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="44395" g_stop="44670" g_length="276"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="276" r_length="276" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="44671" i_stop="46528" i_length="1858">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.609" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46529" g_stop="46581" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="277" r_stop="329" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46582" i_stop="47668" i_length="1087">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="47669" g_stop="47804" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="330" r_stop="465" r_length="136" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E278841" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>465</cumulative_length_of_scored_exons>
        <coverage percentage="0.983" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E278841" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="44395" e_stop="44670"/>
          <exon e_start="46529" e_stop="46581"/>
          <exon e_start="47669" e_stop="47804"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAGGTAATTTGTTGTAATTTTAATCGTAAATTTAGTGATTTTGGGTAATTTTGAGGTATTTATAGTAGATTCTTGTTTGAGCAGTGCAATTAGGGATTTGTTGAACCCAAATGTTCATATAACCAAAGCTCTTTATTTTCTGAAACTTTGAGGTAATTTATTGTAATCTGAGCAGTAAATTTAGTGATTTTTGGGGTAATTTTGAGGTTTCTATTGTAGATTCTTGTTTGAGGTAATGAAATTAGTGATTTTCGGCTAATTTTGAAATATTTATCGCAGATTCTTGTTTGAGCAATAAAAATTAGTGATTTATTGAACCCAACTGTTCATATAACCAAAGCTCTTTATTTTCTGGAACTTTGAGGTAATTTATTGTAATCTGAACAGTAAATTTAGTGATTTTTGGGGGTTATTTTGAGGTTTTTATTGTAAATTCTTGTTTGAGTAATGAAATTAGTGATTTTTGGGTAATTTTGATTTATTTATCATAGATCCTTGTTTGACCAATTTAGGGTCAATTGTGTTTGACCCAAATCTTTAGAGAGTTAAAGTTGTTCACTTTCTGGAAGTTTGATGTAATTTATCATACTCTTAGCAGTAAGTGGTAATTTATTGTAACTTATCTTCTTTGAACGGTGACTATAGTGATTTGTGGGGTAATTTGAGGTATTTATCATAATGTTCTTGCTTGAGTGGTAAAATGTTGTTATTTTGGGATTTGTTTTCATCAATGGTGTACAACCTAAAGCTCTTAACTTTCTGAAAGTTTGAGGTAATTCAACATATCTGTTATTGTTTGAGCATGAAATTGAGTGATTTATGCCCTCAGGGCTTTAGTCAAAGTGGTAAGAGCCCAATACGTGACGTTGGGTTAGGCGCACAACACGGGTTAGAACAGTGACACAGTCAAAAGCCTGGTATTTAAGTGTGGTTAGGGTAGAGGGGCGGGCCTGTCATTGGGCGAGTTTTGAACTGTGCACCGCTAGCCGTTGGGGATTTTTCGGTTATCAAAAGAATAAAAAATTGAGTGGTTCTGGGGGCTGTATTATCAGTTGTGTTCAACCTGAATATTTAGATTCCCAATGTTTATTGCATTTTAATAGTTTGAGGTAAATCTTTTATTTCCCCCTTAAAACCTTTTGTCATTGAAAAAACAAATATAGAAAAGGAAGCTCTTTTGTTAATCCTTGATTTGTAGGCTGTAATTGCGGAAAATGGAATGGGTGAATGGAAGGTTGGAAGCAGACCTTTATAAATGCAATAAGATGAAAGGGGAAAGTAAGTTAAAACTATAAGTTTGGATCACACTTTTGACGTCAACAATATTTAAAGTTTATTGGAATATCATATAAATATGGGCAGGTATGCCTTTCTGCTTACTAAACTATGGTGTGTTGACTTTTTATTGTAGATCTAAAATAAATAGATAATGTTATTTATCTCTTAAGTGTTTAAAGTTTTAGATGAGATGATTCACACACTTTAACTGGGCAACAGAGTAGAGAGTAGAAGGCCCCATGTTCGAGTCTTGTTTCCAATCATCTAACAAAATTGTTACGCATGCTTGGCTCAATAGAAAGAATCAGGTGCTGCACAAGAGAGCATGTTGTGACCTAAAATAAATAAATAAATAAGAGTGGCTTCCCTTTAATAATATGAGTTCTTAGATGAGACGGTTACACATTTAAATAGTTTCATCTGGACAGAGTATTTGGGATAGTTTTTGTTTTATGTTTAAATGAAGCTTACAAAGGTCTAAGAGCTTTTCATCCATTGCATTGACATTGTAATGCCATTTTGTATTCAAGTATGACTCTCCTTAGAATCTCAATGCTAAATCTGTGTTCTATTTCATGTAAAGCCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAGGTTTGCTCGTATCCATATACTACTAAGTGATAAAATTATCAAACAATATTTCATGTATGCTGAATTTATATTAATACCCATTTTCATTTATTCTAACTCATGAAGTTTTTTCAATGATTAAATGCTACGTAGATGCCTTGGTAGTTGTTGTCAGCCATTCTTTATGTCATAATCTTTGTTGCATTGCTATATGGCTCTTATGCCTATTCTTTCCTTTTGTAATTTCTTTTATTTTTCTCTTCCTGGTTACTAAAGAAAATTTAGGAAATAGGTGTCAAGATTTGGCCATTTCTTTTAGTGTACATATTTATATGTCTGTGTACGTCAGTCTTCAGTTATACTGCAAGGTCAAAGAACAGCCCTTAGTATCACAGCTTAAAAACCCTGTAAAAACTGTTGAAATATGTTCCAATACATGAGTCATCACAAAGAGAAATATTGTCCATTCACTCATCAATTTGTTTTGTTAATACTTCAGACCTGATCTTTCAACATACTTTTTACTTTATTTTTGTATAAGAAATAAAGTTTTGATGGGACTTCAACTCCTATCTCTTCTCTCTCTTATTTTTTTTATTTTTTTTTAAAGAAAAACTCCTATCTCTTCTCTGAAGTTCAAGTGTTTGATCCTTCTTTTCAACTGGAGCAATTTAGCCCCTGTAAGTGATGTTATTCCTCTTGTAGATTTCATTAGCTCCTTGTCTTTGGCTTAACAGCCTTGGTCATTTAGAGAAATGGCTCAATGCTCTATCAGTAGTTTTTTTTGTATCTAGGAGCTTTCCCTTTTTCTCCTTTGTTCTCATTCAGCATCTTCTTGATGCCAGTCAATATGACAATTAATTCATAAAAAAAAAACTTTACTTTGTATAAGAAGATCAGGGGTAATCTAGCCGTGAATAGTTGAATGGTCAATCTGCAAGTTTGTTCTAAATTTACTTAGGACCTACAATTACTTTCTTCAAAGTTTTACTTCTAATTGTTGCTTATCATAAAAGAAATAAAGAGAGTTTCAATTCCACTTGTTACAATTGCATTGTAAATGAGAAGCAAATAGAGGATTCTCAATTATTATTTTTCGTTTCAATAGGCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG</genome_strand>
        <mrna_strand>AGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E398108" ref_strand="-" ref_description="SGN-E398108 [TUS-14-E15](-)">
      <seq>actagttcctcggtgtaattttcattgcagtgctcaccaatttgccaccattttagctgcttctacactgacctcagaatcttctttcaaaaattttagaatcagattgaggagcaggaacagtaatagttcttgtttgagcaataaagtttgtgattttggggtcaattgtgttcaacccaaatcttcagatacccaaagctctttgctttctgaaactttgagccaatctggaacagatgaggagcctccatcagaaagattgccaattcttacaggcgggatagtagctctggggaaatttgatgcactccatattggtcaccgcgagcttgcaattcaagcagcaaagagaggaattccatttcttctttcatttgttgggatggcggaagtacttggatgggaaccaagggctcccattgttgctgaatgtgatcgcaaaaggattctttcgtcttgggctccttattggggggggggggggggccatggaactcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="44147" stop="49045"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="44447" g_stop="44670" g_length="224"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="225" r_length="225" r_score="0.978"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="44671" i_stop="46528" i_length="1858">
            <donor d_prob="0.893" d_score="1.00"/>
            <acceptor a_prob="0.609" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="46529" g_stop="46581" g_length="53"/>
          <reference_exon_boundary r_type="cDNA" r_start="226" r_stop="278" r_length="53" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="46582" i_stop="47668" i_length="1087">
            <donor d_prob="0.991" d_score="1.00"/>
            <acceptor a_prob="0.790" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="47669" g_stop="47804" g_length="136"/>
          <reference_exon_boundary r_type="cDNA" r_start="279" r_stop="414" r_length="136" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="47805" i_stop="48682" i_length="878">
            <donor d_prob="0.995" d_score="1.00"/>
            <acceptor a_prob="0.846" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="48683" g_stop="48744" g_length="62"/>
          <reference_exon_boundary r_type="cDNA" r_start="415" r_stop="476" r_length="62" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E398108" ref_strand="-">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="0.948" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E398108" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="44447" e_stop="44670"/>
          <exon e_start="46529" e_stop="46581"/>
          <exon e_start="47669" e_stop="47804"/>
          <exon e_start="48683" e_stop="48744"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTGGGT-CTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAGGTAATTTGTTGTAATTTTAATCGTAAATTTAGTGATTTTGGGTAATTTTGAGGTATTTATAGTAGATTCTTGTTTGAGCAGTGCAATTAGGGATTTGTTGAACCCAAATGTTCATATAACCAAAGCTCTTTATTTTCTGAAACTTTGAGGTAATTTATTGTAATCTGAGCAGTAAATTTAGTGATTTTTGGGGTAATTTTGAGGTTTCTATTGTAGATTCTTGTTTGAGGTAATGAAATTAGTGATTTTCGGCTAATTTTGAAATATTTATCGCAGATTCTTGTTTGAGCAATAAAAATTAGTGATTTATTGAACCCAACTGTTCATATAACCAAAGCTCTTTATTTTCTGGAACTTTGAGGTAATTTATTGTAATCTGAACAGTAAATTTAGTGATTTTTGGGGGTTATTTTGAGGTTTTTATTGTAAATTCTTGTTTGAGTAATGAAATTAGTGATTTTTGGGTAATTTTGATTTATTTATCATAGATCCTTGTTTGACCAATTTAGGGTCAATTGTGTTTGACCCAAATCTTTAGAGAGTTAAAGTTGTTCACTTTCTGGAAGTTTGATGTAATTTATCATACTCTTAGCAGTAAGTGGTAATTTATTGTAACTTATCTTCTTTGAACGGTGACTATAGTGATTTGTGGGGTAATTTGAGGTATTTATCATAATGTTCTTGCTTGAGTGGTAAAATGTTGTTATTTTGGGATTTGTTTTCATCAATGGTGTACAACCTAAAGCTCTTAACTTTCTGAAAGTTTGAGGTAATTCAACATATCTGTTATTGTTTGAGCATGAAATTGAGTGATTTATGCCCTCAGGGCTTTAGTCAAAGTGGTAAGAGCCCAATACGTGACGTTGGGTTAGGCGCACAACACGGGTTAGAACAGTGACACAGTCAAAAGCCTGGTATTTAAGTGTGGTTAGGGTAGAGGGGCGGGCCTGTCATTGGGCGAGTTTTGAACTGTGCACCGCTAGCCGTTGGGGATTTTTCGGTTATCAAAAGAATAAAAAATTGAGTGGTTCTGGGGGCTGTATTATCAGTTGTGTTCAACCTGAATATTTAGATTCCCAATGTTTATTGCATTTTAATAGTTTGAGGTAAATCTTTTATTTCCCCCTTAAAACCTTTTGTCATTGAAAAAACAAATATAGAAAAGGAAGCTCTTTTGTTAATCCTTGATTTGTAGGCTGTAATTGCGGAAAATGGAATGGGTGAATGGAAGGTTGGAAGCAGACCTTTATAAATGCAATAAGATGAAAGGGGAAAGTAAGTTAAAACTATAAGTTTGGATCACACTTTTGACGTCAACAATATTTAAAGTTTATTGGAATATCATATAAATATGGGCAGGTATGCCTTTCTGCTTACTAAACTATGGTGTGTTGACTTTTTATTGTAGATCTAAAATAAATAGATAATGTTATTTATCTCTTAAGTGTTTAAAGTTTTAGATGAGATGATTCACACACTTTAACTGGGCAACAGAGTAGAGAGTAGAAGGCCCCATGTTCGAGTCTTGTTTCCAATCATCTAACAAAATTGTTACGCATGCTTGGCTCAATAGAAAGAATCAGGTGCTGCACAAGAGAGCATGTTGTGACCTAAAATAAATAAATAAATAAGAGTGGCTTCCCTTTAATAATATGAGTTCTTAGATGAGACGGTTACACATTTAAATAGTTTCATCTGGACAGAGTATTTGGGATAGTTTTTGTTTTATGTTTAAATGAAGCTTACAAAGGTCTAAGAGCTTTTCATCCATTGCATTGACATTGTAATGCCATTTTGTATTCAAGTATGACTCTCCTTAGAATCTCAATGCTAAATCTGTGTTCTATTTCATGTAAAGCCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAGGTTTGCTCGTATCCATATACTACTAAGTGATAAAATTATCAAACAATATTTCATGTATGCTGAATTTATATTAATACCCATTTTCATTTATTCTAACTCATGAAGTTTTTTCAATGATTAAATGCTACGTAGATGCCTTGGTAGTTGTTGTCAGCCATTCTTTATGTCATAATCTTTGTTGCATTGCTATATGGCTCTTATGCCTATTCTTTCCTTTTGTAATTTCTTTTATTTTTCTCTTCCTGGTTACTAAAGAAAATTTAGGAAATAGGTGTCAAGATTTGGCCATTTCTTTTAGTGTACATATTTATATGTCTGTGTACGTCAGTCTTCAGTTATACTGCAAGGTCAAAGAACAGCCCTTAGTATCACAGCTTAAAAACCCTGTAAAAACTGTTGAAATATGTTCCAATACATGAGTCATCACAAAGAGAAATATTGTCCATTCACTCATCAATTTGTTTTGTTAATACTTCAGACCTGATCTTTCAACATACTTTTTACTTTATTTTTGTATAAGAAATAAAGTTTTGATGGGACTTCAACTCCTATCTCTTCTCTCTCTTATTTTTTTTATTTTTTTTTAAAGAAAAACTCCTATCTCTTCTCTGAAGTTCAAGTGTTTGATCCTTCTTTTCAACTGGAGCAATTTAGCCCCTGTAAGTGATGTTATTCCTCTTGTAGATTTCATTAGCTCCTTGTCTTTGGCTTAACAGCCTTGGTCATTTAGAGAAATGGCTCAATGCTCTATCAGTAGTTTTTTTTGTATCTAGGAGCTTTCCCTTTTTCTCCTTTGTTCTCATTCAGCATCTTCTTGATGCCAGTCAATATGACAATTAATTCATAAAAAAAAAACTTTACTTTGTATAAGAAGATCAGGGGTAATCTAGCCGTGAATAGTTGAATGGTCAATCTGCAAGTTTGTTCTAAATTTACTTAGGACCTACAATTACTTTCTTCAAAGTTTTACTTCTAATTGTTGCTTATCATAAAAGAAATAAAGAGAGTTTCAATTCCACTTGTTACAATTGCATTGTAAATGAGAAGCAAATAGAGGATTCTCAATTATTATTTTTCGTTTCAATAGGCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAGGTATAACTTCTGTTGTCTCTTATGTTTTACGCTGCTGTCATAGAATGTTAAATAGAGAAATATTATCTCCTCGAAATACCAGAAAAGGACAGAAGGATGAACTTTGTCATGACTCGACTCTCACTGCTTCACCCAATCCTGTAATAGTACCTAGGATCAACTTTGAATTCTGAAAATACAAAAGGAAAGAGGATCATCACATCAGAGAGTTTTATCTTGCATTCTCTTAGTGTATGCAAGTCTTAACTTGTAGCAATATTCCACCCTAGCTCCTCTGATTTAGCATAACTCTATGGACCCGGTTGACACTCTTTCTCCAAAGCACTAGATAGTAACATTCTTGAGTTTAGGAATTTCTGTTAATAGGATGATCAATCAGAATATGTACAAAGAAGGAAGAAAATATATCCATATATTTTAGTTCATTTAAGTTTTAACGAAAAGCATAAAATAAAGAAATCAATCTCCACATCAGTATATTTTCCGACAGGAAAACTTAAGTTAATGTCCTCTATTCTTTTCTTCACTGCTTTTTGCGACAAGTGAAAGTTTGTGATGATTCCTTATAGCTTTTTGCTGTATCTTGTCCTTCATCTAAAATTCAAAGGATGTCCTTATCAACATGTTATACAATCTTGATTTGCTCCTTGGAAATAAAATATTTTCAAACGTTATTCTACTCAAGTAGTATATAGGATTAGTCATGGTTTAGAAAATTTGGTGTTTGAAGCTGGAAGGTGTTTACATCTGTTGAGTGTATCCTCCTAACCTTACTCAAGCTTACTGAGAAGTTCCTTTTTTGGTTAGTAGTCTTTATGAAATGCCATATCATGAAATGAGAAATAATATTTGTGAGCATGTGCATATTTTCAACCCAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCG</genome_strand>
        <mrna_strand>ACTAGTTCCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAG..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAG...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E538853" ref_strand="+" ref_description="SGN-E538853 [TUS-58-F1](-)">
      <seq>ccaagggctcccattgttgctgaatgtgatcgcaaaaggattctttcgtcttgggctccttattgcggtagtataatgccaagggaactccagatagatttttcgaaagttcgatatcttacgccttgtcagtttgtggagaagctttccaaagagctgggagtacgaggagttgttgctggcgagaattatcgttttggatatagagctgctggtgatgcatcagaccttgtgaagctctgtgaggagtatggattagaggcttatataatcaattctgtcatggacacaaatcaaatttctggagacttgaactctaaagacggtaaagagagagggcaagtatcatctactcgtgttaggtatgcccttcacaagggagacatgaaatatgtgtcagagctattaggtcggaaccatcgtcttattttaatgatggaagaccaagaaaggtttactagtgagagaaataggctgtctgctccaaagtcttgtttgttgaatcttgcacctaaggaaggtctttatgagaattgttcagttttgattgacaagagtgttattccctgcagagtaatagttgatacaacatatattcatttggaatcctatgaggtagctagtttttccctgtgttacttctcnaagacttaaagantattgggtattgactttggcagtccnaaagttaganaggggttcanaattttgtaattcattcccgantaatttgttagtgcaacccatttctgaatgtcccttcagtgntttaagtatgagtatgattttttaagcgngtacctttctgctaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="48379" stop="49866"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48678" g_stop="48858" g_length="181"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="181" r_length="181" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.950" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48946" g_stop="49550" g_length="605"/>
          <reference_exon_boundary r_type="cDNA" r_start="182" r_stop="796" r_length="615" r_score="0.967"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="811" polyA_stop="820"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E538853" ref_strand="+">
        <total_alignment_score>0.973</total_alignment_score>
        <cumulative_length_of_scored_exons>786</cumulative_length_of_scored_exons>
        <coverage percentage="0.959" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538853" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48678" e_stop="48858"/>
          <exon e_start="48946" e_stop="49550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCCAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTGGTATGTTGTAACATCCTAACTTGATATAGAGATTCCAATATAAACTAATAAAAGATAAAAAAGATGATGATGTCTTGATGACCTCAGGCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAGTATCATCTACTCGTGTTAGGTATGCCCTTCACAAGGGAGACATGAAATATGTGTCAGAGCTATTAGGTCGGAACCATCGTCTTATTTTAATGATGGAAGACCAAGAAAGGTTTACTAGTGAGAGAAATAGGCTGTCTGCTCCAAAGTCTTGTTTGTTGAATCTTGCACCTAAGGAAGGTCTTTATGAGAATTGTTCAGTTTTGATTGACAAGAGTGTTATTCCCTGCAGAGTAATAGTTGATACAACATATATTCATTTGGAATCCTATGAGGTAGCTAGTTTTT-CCTGTGTTACTTCTC-AAGACTTAAAGA-TATTGGGTATTGACTTTGGCAGTCC-AAAGTTAGA-AGGGGTTCA-AATTTTGTAATTCATTCCCGA-TAATTTGTTAGTGCAA-CCATTTCTGAATGT-CCTTCAGTG-TTTAAGTATGAGTATGATTTTTTAAGCG</genome_strand>
        <mrna_strand>CCAAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG.......................................................................................GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAGTATCATCTACTCGTGTTAGGTATGCCCTTCACAAGGGAGACATGAAATATGTGTCAGAGCTATTAGGTCGGAACCATCGTCTTATTTTAATGATGGAAGACCAAGAAAGGTTTACTAGTGAGAGAAATAGGCTGTCTGCTCCAAAGTCTTGTTTGTTGAATCTTGCACCTAAGGAAGGTCTTTATGAGAATTGTTCAGTTTTGATTGACAAGAGTGTTATTCCCTGCAGAGTAATAGTTGATACAACATATATTCATTTGGAATCCTATGAGGTAGCTAGTTTTTCCCTGTGTTACTTCTCNAAGACTTAAAGANTATTGGGTATTGACTTTGGCAGTCCNAAAGTTAGANAGGGGTTCANAATTTTGTAATTCATTCCCGANTAATTTGTTAGTGCAACCCATTTCTGAATGTCCCTTCAGTGNTTTAAGTATGAGTATGATTTTTTAAGCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E538936" ref_strand="+" ref_description="SGN-E538936 [TUS-58-H1](-)">
      <seq>gggctcccattgttgctgaatgtgatcgcaaaaggattctttcgtcttgggctccttattgcggtagtataatgccaagggaactccagatagatttttcgaaagttcgatatcttacgccttgtcagtttgtggagaagctttccaaagagctgggagtacgaggagttgttgctggcgagaattatcgttttggatatagagctgctggtgatgcatcagaccttgtgaagctctgtgaggagtatggattagaggcttatataatcaattctgtcatggacacaaatcaaatttctggagacttgaactctaaagacggtaaagagagagggcaagtatcatctactcgtgttaggtatgcccttcacaagggagacatgaaatatgtgtcagagctattaggtcggaaccatcgtcttattttaatgatggaagaccaagaaaggtttactagtgagagaaataggctgtctgctccaaagtcttgtttgttgaatcttgcacctaaggaaggtctttatgagaattgttcagttttgattgacaagagtgttattccctgcagagtaatagttgatacaacatatattcatttggaatcctatgaggtagctagtttttcctgtgttacttctcaagacttaaagatattgggtattgactttggcagtccaaagttagaaggggttcaaattttgtaattcattcccgataatttgttagtgcaaccatttctgaatgtccttcagtgtttaagtatgagtatgattttttaagcggtacctttctgctaaaaaaaaaaaaaaaaaactcgaggggggccc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="48382" stop="49866"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48682" g_stop="48858" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.950" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="48946" g_stop="49565" g_length="620"/>
          <reference_exon_boundary r_type="cDNA" r_start="178" r_stop="797" r_length="620" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="798" polyA_stop="814"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E538936" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>797</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E538936" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48682" e_stop="48858"/>
          <exon e_start="48946" e_stop="49565"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTGGTATGTTGTAACATCCTAACTTGATATAGAGATTCCAATATAAACTAATAAAAGATAAAAAAGATGATGATGTCTTGATGACCTCAGGCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAGTATCATCTACTCGTGTTAGGTATGCCCTTCACAAGGGAGACATGAAATATGTGTCAGAGCTATTAGGTCGGAACCATCGTCTTATTTTAATGATGGAAGACCAAGAAAGGTTTACTAGTGAGAGAAATAGGCTGTCTGCTCCAAAGTCTTGTTTGTTGAATCTTGCACCTAAGGAAGGTCTTTATGAGAATTGTTCAGTTTTGATTGACAAGAGTGTTATTCCCTGCAGAGTAATAGTTGATACAACATATATTCATTTGGAATCCTATGAGGTAGCTAGTTTTTCCTGTGTTACTTCTCAAGACTTAAAGATATTGGGTATTGACTTTGGCAGTCCAAAGTTAGAAGGGGTTCAAATTTTGTAATTCATTCCCGATAATTTGTTAGTGCAACCATTTCTGAATGTCCTTCAGTGTTTAAGTATGAGTATGATTTTTTAAGCGGTACCTTTCTGCTAA</genome_strand>
        <mrna_strand>GGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG.......................................................................................GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAGTATCATCTACTCGTGTTAGGTATGCCCTTCACAAGGGAGACATGAAATATGTGTCAGAGCTATTAGGTCGGAACCATCGTCTTATTTTAATGATGGAAGACCAAGAAAGGTTTACTAGTGAGAGAAATAGGCTGTCTGCTCCAAAGTCTTGTTTGTTGAATCTTGCACCTAAGGAAGGTCTTTATGAGAATTGTTCAGTTTTGATTGACAAGAGTGTTATTCCCTGCAGAGTAATAGTTGATACAACATATATTCATTTGGAATCCTATGAGGTAGCTAGTTTTTCCTGTGTTACTTCTCAAGACTTAAAGATATTGGGTATTGACTTTGGCAGTCCAAAGTTAGAAGGGGTTCAAATTTTGTAATTCATTCCCGATAATTTGTTAGTGCAACCATTTCTGAATGTCCTTCAGTGTTTAAGTATGAGTATGATTTTTTAAGCGGTACCTTTCTGCTAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E202378" ref_strand="+" ref_description="SGN-E202378 [cLEC-6-H6]">
      <seq>aaagaatgtgaatttagcagaaaggtaccgcttaaaaaatcatactcatacttaaacactgaaggacattcagaaatggttgcactaacaaattatcgggaatgaattacaaaatttgaaccccttctaactttggactgccaaagtcaatacccaatatctttaagtcttgagaagtaacacaggaaaaactagctacctcataggattccaaatgaatatatgttgtatcaactattactctgcagggaataacactcttgtcaatcaaaactgaacaattctcataaagaccttccttaggtgcaagattcaacaaacaagactttggagcagacagcctatttctctcactagtaaacctttcttggtcttccatcattaaaataagacgatggttccgacctaatagctctgacacatatttcatgtctcccttgtgaagggcatacctaacacgagtagatgatacttgccctctctctttaccgtctttagagttcaagtctccagaaatttgatttgtgtccatgacagaattgattatataag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="49878" stop="48727"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49578" g_stop="49027" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="552" r_length="552" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E202378" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E202378" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49578" e_stop="49027"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCTCTGACACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTTACCGTCTTTAGAGTTCAAGTCTCCAGAAATTTGATTTGTGTCCATGACAGAATTGATTATATAAG</genome_strand>
        <mrna_strand>AAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCTCTGACACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTTACCGTCTTTAGAGTTCAAGTCTCCAGAAATTTGATTTGTGTCCATGACAGAATTGATTATATAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E210078" ref_strand="+" ref_description="SGN-E210078 [cLEC-40-E24]">
      <seq>aaagaatgtgaatttagcagaaaggtaccgcttaaaaaatcatactcatacttaaacactgaaggacattcagaaatggttgcactaacaaattatcgggaatgaattacaaaatttgaaccccttctaactttggactgccaaagtcaatacccaatatctttaagtcttgagaagtaacacaggaaaaactagctacctcataggattccaaatgaatatatgttgtatcaactattactctgcagggaataacactcttgtcaatcaaaactgaacaattctcataaagaccttccttaggtgcaagattcaacaaacaagactttggagcagacagcctatttctctcactagtaaacctttcttggtcttccatcattaaaataagacgatggttccgacctaatagctctgacacatatttcatgtctcccttgtgaagggcatacctaacacgagtagatgatacttgccctctctctttaccgtctttagagttcaagtctccagaaatttgatttgtgtccatgacagaattgatta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="49878" stop="48733"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49578" g_stop="49033" g_length="546"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="546" r_length="546" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E210078" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>546</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E210078" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49578" e_stop="49033"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCTCTGACACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTTACCGTCTTTAGAGTTCAAGTCTCCAGAAATTTGATTTGTGTCCATGACAGAATTGATTA</genome_strand>
        <mrna_strand>AAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCTCTGACACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTTACCGTCTTTAGAGTTCAAGTCTCCAGAAATTTGATTTGTGTCCATGACAGAATTGATTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E394242" ref_strand="+" ref_description="SGN-E394242 [TUS-14-E15]">
      <seq>aaaagaatgtgaatttagcagaaaggtaccgcttaaaaaatcatactcatacttaaacactgaaggacattcagaaatggttgcactaacaaattatcgggaatgaattacaaaatttgaaccccttctaactttggactgccaaagtcaatacccaatatctttaagtcttgagaagtaacacaggaaaaactagctacctcataggattccaaatgaatatatgttgtatcaactattactctgcagggaataacactcttgtcaatcaaaactgaacaattctcataaagaccttccttaggtgcaagattcaacaaacaagactttggagcagacagcctatttctctcactagtaaacctttcttggtcttccatcattaaaataagacgatggttccgacctaatagcggcggagggcgtatttcatgtctcccttgtgaagggcatacctaacacgagtagatgatacttgccctctctcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="49879" stop="48792"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="49579" g_stop="49092" g_length="488"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="490" r_length="490" r_score="0.982"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E394242" ref_strand="+">
        <total_alignment_score>0.982</total_alignment_score>
        <cumulative_length_of_scored_exons>488</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E394242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="49579" e_stop="49092"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGC-TCTGA-CACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTT</genome_strand>
        <mrna_strand>AAAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCGGCGGAGGGCGTATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E704866" ref_strand="+" ref_description="SGN-E704866 [FA25CA03]">
      <seq>atgaaaagataacttctctttctttccagtataagatcagaaccataaacttctccgatggccggcgccggcgacgattctcatctgcagaacgacgtcgtttcagtccactgtataaacgacagtctcggcgacgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcgtcccgattcactcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttgcgaattctcaatctgcagaactgtaaaggcataacagacaaaggattggctgctattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaacgctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgaccttgaagttgttggattgctataaaagttggtgatgactctatcttatccttggcca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53045" stop="55201"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53345" g_stop="53771" g_length="427"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="427" r_length="427" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54901" g_length="426"/>
          <reference_exon_boundary r_type="cDNA" r_start="428" r_stop="854" r_length="427" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E704866" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>853</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E704866" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53345" e_stop="53771"/>
          <exon e_start="54476" e_stop="54901"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAAAAGATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTAT-AAAGTTGGTGATGACTCTATCTTATCCTTGGCCA</genome_strand>
        <mrna_strand>ATGAAAAGATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAACGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACCTTGAAGTTGTTGGATTGCTATAAAAGTTGGTGATGACTCTATCTTATCCTTGGCCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E703110" ref_strand="+" ref_description="SGN-E703110 [FA20CD02]">
      <seq>gataacttctctttctttccagtataagatcagaaccataaacttctccgatggccggcgccggcgacgattctcatctgcagaacgacgtcgtttcagtccactgtataaacgacagtctcggcgacgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcgtcccgattcactcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttgcgaattctcaatctgcagaactgtaaaggcataacagacaaaggattggctgctattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgacattgaagttgttggattgctataaaagtggtgatgactctatcttatccttggccaaccactgcaaaaatcttg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53052" stop="55219"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53352" g_stop="53771" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54919" g_length="444"/>
          <reference_exon_boundary r_type="cDNA" r_start="421" r_stop="864" r_length="444" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E703110" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>864</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703110" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53352" e_stop="53771"/>
          <exon e_start="54476" e_stop="54919"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTG</genome_strand>
        <mrna_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAAGTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E703536" ref_strand="+" ref_description="SGN-E703536 [FA21DB05]">
      <seq>gataacttctctttctttccagtataagatcagaaccataaacttctccgatggccggcgccggcgacgattctcatctgcagaacgacgtcgtttcagtccactgtataaacgacagtctcggcgacgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcgtcccgattcactcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttgcgaattctcaatctgcagaactgtaaaggcataacagacaaaggattggctgctattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgacattgaagttgttggattgctataaagttggtgatgactctatcttatccttggccaaccactgcaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53052" stop="55212"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53352" g_stop="53771" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54912" g_length="437"/>
          <reference_exon_boundary r_type="cDNA" r_start="421" r_stop="857" r_length="437" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E703536" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>857</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E703536" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53352" e_stop="53771"/>
          <exon e_start="54476" e_stop="54912"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAA</genome_strand>
        <mrna_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E709037" ref_strand="+" ref_description="SGN-E709037 [FA42CA08]">
      <seq>gataacttctctttctttccagtataagatcagaaccataaacttctccgatggccggcgccggcgacgattctcatctgcagaacgacgtcgtttcagtccactgtataaacgacagtctcggcgacgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcgtcccgattcactcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttgcgaattctcaatctgcagaactgtaaaggcataacagacaaaggattggctgctattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatccatattggtgatattgggaaatctagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53052" stop="55114"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53352" g_stop="53771" g_length="420"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="420" r_length="420" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54814" g_length="339"/>
          <reference_exon_boundary r_type="cDNA" r_start="421" r_stop="759" r_length="339" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E709037" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>759</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E709037" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53352" e_stop="53771"/>
          <exon e_start="54476" e_stop="54814"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTG</genome_strand>
        <mrna_strand>GATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCCATATTGGTGATATTGGGAAATCTAGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E697542" ref_strand="+" ref_description="SGN-E697542 [FA03BB12]">
      <seq>ccgctttctttccagtataagatcagaaccataaacttctcccatggccggcgccggcgacgattctcatctgcagaacgacgtcgtttcagtccactgtataaacgacagtctcggcgacgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcgtcccgattcactcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttgcgaattctcaatctgcagaactgtaaaggcataacagacaaaggattggctgctattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaccaaatgcatcaatattggtgatattgggatatctagtgtgtctg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53060" stop="55120"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53359" g_stop="53771" g_length="413"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="413" r_length="413" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.962" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54820" g_length="345"/>
          <reference_exon_boundary r_type="cDNA" r_start="414" r_stop="758" r_length="345" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E697542" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>758</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E697542" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53359" e_stop="53771"/>
          <exon e_start="54476" e_stop="54820"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTG</genome_strand>
        <mrna_strand>CCGCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCCATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTACCAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E690306" ref_strand="+" ref_description="SGN-E690306 [LH_Ea03C16]">
      <seq>tagaaccataaacttctccgatggccggcgccggcgactattctcgtctgcagagcgacatcgtttcagtccactgtataaacgacagtctcggcgatgatgagcttcgggccgtactgtcgagacttggagacgacaaagacaaggaagttttcgggctggtatgtaagcggtggcttcgtattcaaagtactgaaaggaagaagctttgtgctcgggccgggcctcacatgctcagaagaatcgcggcccgattcattcgattacatgagcttgatctatctcaatcggtttctagatctttctatcctggtgttactgattctgatctttcagttattgctactgctttctcttgcttacgaattctcaatcttcagaactgtagaggcataacagacaaaggattggctgcgattggatcaagtctgtcttctttacagtccttagatgtatcctactgcagaaagatcactgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaacattgcatcttgctggatgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacatttccaactcaggtctctctgttctggttgaaggttgccggaggataaaccatttggacattaacaaatgcatccatattggtgatattg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="53083" stop="55102"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="53382" g_stop="53771" g_length="390"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="390" r_length="390" r_score="0.972"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704">
            <donor d_prob="0.997" d_score="0.94"/>
            <acceptor a_prob="0.962" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="54476" g_stop="54802" g_length="327"/>
          <reference_exon_boundary r_type="cDNA" r_start="391" r_stop="717" r_length="327" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E690306" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>717</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E690306" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="53382" e_stop="53771"/>
          <exon e_start="54476" e_stop="54802"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAGGTTCGTTTTTGTATTTTTTTCTGAAGTTTTATAGTTTGAAATTTGTTGAATTTGAATGGTCATTGCTGAAGTGAACCTGAGCTACTGCAGGAGAGGCCAAATGCACCAATCAGTAGTCGTACTCGTATATGTAGTGATACTTCACATCTAGTACCGATTTAAAATCTTGAATTTGTTTCTCTGTGGGATGGTTGAGCGGGCTTTTCATTAAGATAAACACACAAAGCAGTTGAAGGGGTCAACATTTATTATATATATACACATAAAACATAATTTTATCCATGTATAACCTGTTCGGATGAACCCCTGGCCCCTTACTAGCTCTGCCCCTGTCTGTGTGAGGTGTTGGATGTATTGTTCCCAACTTGGACATAAAGGTTTTGACCTGATGTGGCGAAGACTGCCTCTTCCTCTTTTCTATCTTGTAAATAATGGGTTATTATGATGAAAATGGAGTAATGGGGTTTGTGGAGGATTTTAGGGGATTTATGGTTGTTTTTTTTAGGACAATTAATTGCAAATTTGTAGGATTTTGTGTTTCTGCCTAAAGATTATGTCTTTTTTTCTATGTGGTTTTTGTTGTGGTAGGAACAGGCTATTATATCATATGTATTCCATTTTTCAAGAGTGTAACTTTATTGTGAATCTAAGGCTCAGATGCTTCCTTGACTTAACTTGCACGGTTTTATGGTCCAAACATACAGGCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTG</genome_strand>
        <mrna_strand>TAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACTATTCTCGTCTGCAGAGCGACATCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGATGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGGCCCGATTCATTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTACGAATTCTCAATCTTCAGAACTGTAGAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GCATAACAGACAAAGGATTGGCTGCGATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAACATTGCATCTTGCTGGATGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTTCCAACTCAGGTCTCTCTGTTCTGGTTGAAGGTTGCCGGAGGATAAACCATTTGGACATTAACAAATGCATCCATATTGGTGATATTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E304341" ref_strand="+" ref_description="SGN-E304341 [cLEX-12-N15]">
      <seq>actgacaaggggctttcagctgttgctgaggggtgtcatgacttgagaatattgcatctttctggctgtagatttgtctcagattcattaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgacattgaagttgttggattgctataaagttggtgatgactctatcttatccttggccaaccactgcaaaaatcttgagacactcgttattggtggttgccgtaacatatcagatgagtccatgaagtcactggcagcttcttgtagtaatagtctgaggaaactgaggatggattggtgcttgaatattacagactcttcattggactgcatcctttccaaatgcggagagc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54259" stop="55375"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54559" g_stop="55075" g_length="517"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="517" r_length="517" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E304341" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>517</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E304341" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54559" e_stop="55075"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGC</genome_strand>
        <mrna_strand>ACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCGGAGAGC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E698288" ref_strand="+" ref_description="SGN-E698288 [FA05DD02]">
      <seq>cgtttgaatattgcatctttctggctgtagatttgtctcagattctttaatgaaagctctctccgagaattgccataatgtggaagagataggtttgcaaggatgcaccaacattaccaactcaggtctctctgttatggttgaaggttgccggaggataaagcatttggacattaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgacattgaagttgttggattgctataaagttggtgatgactctatcttatccttggccaaccactgcaaaaatcttgagacactcgctattggtggttgccgtaacatatcagatgagtccatgaagtcactggcagcttcttgtactaatactctgaggaaactgaggatggattggtgcttgaatattacagactcttcattggactgcatcctttccaaatgcagagagcttgaggttctcgacattggctgctgtgaggagttaactgatgctgcatttcaacaattaggaagtgacaactttat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54300" stop="55451"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54600" g_stop="55151" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="552" r_length="552" r_score="0.987"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E698288" ref_strand="+">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E698288" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54600" e_stop="55151"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTAT</genome_strand>
        <mrna_strand>CGTTTGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCTTTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGCTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTACTAATACTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E701555" ref_strand="+" ref_description="SGN-E701555 [FA16BC03]">
      <seq>attaacaaatgcatcaatattggtgatattgggatatctagtgtgtctgaagcttgttcattgacactcatgacattgaagttgttggattgctataaagttggtgatgactctatcttatccttggccaaccactgcaaaaatcttgagacactcgttattggtggttgccgtaacatatcagatgagtccatgaagtcactggcagcttcttgtagtaatagtctgaggaaactgaggatggattggtgcttgaatattacagactcttcattggactgcatcctttccaaatgcagagagcttgaggttctcgacattggctgctgtgaggagttaactgatgctgcatttcaacaattaggaagtgacaactttatgttggggatgaagattttgaaggtcagtaactgtccaaagatcactgttgaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacgatcttgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaggcctgatggggatcatacagtgtaattatcaccttctttgcctaagacctaaaatatgactttggaagctcctgatgtcagtcccttgttcccattaatttgccttttgttaagcatcaagtttttctgttgtagattattccctgcttttcagtcatttgatatncaactcctgtatatcatccttgtaaactactagttagccccaatgtttgctgtaggtgttttcagattgtgaatgaaatgaatccattgctgctagtttgaatgtgaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54472" stop="55972"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54772" g_stop="55677" g_length="906"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="906" r_length="906" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E701555" ref_strand="+">
        <total_alignment_score>0.993</total_alignment_score>
        <cumulative_length_of_scored_exons>906</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E701555" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54772" e_stop="55677"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTATGTTGGGGATGAAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTAT</genome_strand>
        <mrna_strand>ATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTATGTTGGGGATGAAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATNCAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E354209" ref_strand="+" ref_description="SGN-E354209 [cTOS-16-A10]">
      <seq>cgttattggtggttgccgtaacatatcagatgagtccatgaagtcactggcagcttcttgtagtaatagtctgaggaaactgaggatggattggtgcttgaatattacagactcttcattggactgcatcctttccaaatgcagagagcttgaggttctcgacattggctgctgtgaggagttaactgatgctgcatttcaacaattaggaagtgacaactttatgttggggatgaagattttgaaggtcagtaactgtccaaagatcactgttgaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacgatcttgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaagcctgatggggatcatacagtgtaattatcaccttctttgcctaagactaaaatatgactttggaagctcctgatgtcagtcccttgttccccattatttgccttttgtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54627" stop="55810"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54927" g_stop="55510" g_length="584"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="583" r_length="583" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E354209" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>584</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E354209" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54927" e_stop="55510"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTATGTTGGGGATGAAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTA</genome_strand>
        <mrna_strand>CGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTATGTTGGGGATGAAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAAGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGA-CTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCCATTATTTGCCTTTTGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E715163" ref_strand="+" ref_description="SGN-E715163 [FB13CB05]">
      <seq>aagattttgaaggtcagtaactgtccaaagatcactgttgaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacgatcttgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaggcctgatggggatcatacagtgtaattatcaccttctttgcctaagacctaaaatatgactttggaagctcctgatgtcagtcccttgttcccattaatttgccttttgttaagcatcaagtttttctgttgtagattattccctgcttttcagtcatttgatatcaaactcctgtatatcatccttgtaaactactagttagccccaatgtttgctgtaggtgttttcagattgtgaatgaaatgaatccattgctgctagtttgaatgtgaacttataccaatcatgatggtttaattgattacnaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54862" stop="56007"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55162" g_stop="55706" g_length="545"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="545" r_length="545" r_score="0.996"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="546" polyA_stop="568"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E715163" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>545</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E715163" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55162" e_stop="55706"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTATACCAATCATGATGGTTTAATTGATTACAC</genome_strand>
        <mrna_strand>AAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTATACCAATCATGATGGTTTAATTGATTACNA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E715165" ref_strand="+" ref_description="SGN-E715165 [FB13CB07]">
      <seq>aagattttgaaggtcagtaactgtccaaagatcactgttgaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacgatcttgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaggcctgatggggatcatacagtgtaattatcaccttctttgcctaagacctaaaatatgactttggaagctcctgatgtcagtcccttgttcccattaatttgccttttgttaagcatcaagtttttctgttgtagattattccctgcttttcagtcatttgatatcaaactcctgtatatcatccttgtaaactactagttagccccaatgtttgctgtaggtgttttcagattgtgaatgaaatgaatccattgctgctagtttgaatgtgaacttataccaatcatgatggtttaattgattacaaaaaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54862" stop="56007"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55162" g_stop="55706" g_length="545"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="545" r_length="545" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="546" polyA_stop="568"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E715165" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>545</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E715165" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55162" e_stop="55706"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTATACCAATCATGATGGTTTAATTGATTACAC</genome_strand>
        <mrna_strand>AAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTATACCAATCATGATGGTTTAATTGATTACAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E239235" ref_strand="+" ref_description="SGN-E239235 [cLEL-9-K10](-)">
      <seq>cagactgttgaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacgatcttgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaggcctgatggggatcatacagtgtaattatcaccttctttgcctaagacctaaaatatgactttggaagctcctgatgtcagtcccttgttcccattaatttgccttttgttaagcatcaagtttttctgttgtagattattccctgcttttcagtcatttgatatcaaactcctgtatatcatccttgtaaactactagttagccccaatgtttgctgtaggtgttttcagattgtgaatgaaatgaatccattgctgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54895" stop="55959"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55192" g_stop="55659" g_length="468"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="468" r_length="468" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="469" polyA_stop="484"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E239235" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>468</cumulative_length_of_scored_exons>
        <coverage percentage="0.967" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239235" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55192" e_stop="55659"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTA</genome_strand>
        <mrna_strand>CAGACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E239171" ref_strand="+" ref_description="SGN-E239171 [cLEL-9-K10](-)">
      <seq>gaaggaattaagaagcttatgaagtcatgcaaatttcttgaatatctagacgtacggtcnntgtccccttatcactaaagcagggtgtgaggaggctggaattcagtttcctgaatcctgcaaaataaacttcactggaagcttagcagagccagatgtgttactttgagcagtacttgttttagcaatgtctttgaaggcctgatggggatcatacagtgtaattatcaccttctttgcctaagacctaaaatatgactttggaagctcctgatgtcagtcccttgttcccattaatttgccttttgttaagcatcaagtttttctgttgtagattattccctgcttttcagtcatttgatatcaaactcctgtatatcatccttgtaaactactagttagccccaatgtttgctgtaggtgttttcagattgtgaatgaaatgaatccattgctgctaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="54901" stop="55959"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="55201" g_stop="55659" g_length="459"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="460" r_length="460" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="461" polyA_stop="476"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E239171" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>459</cumulative_length_of_scored_exons>
        <coverage percentage="0.964" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E239171" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="55201" e_stop="55659"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATC-TTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTA</genome_strand>
        <mrna_strand>GAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGGTCNNTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E555379" ref_strand="-" ref_description="SGN-E555379 [cTSC-2-I1]">
      <seq>caaattaagcagagaagatatgtcatttgtaagatgaacaaattgggagaaagggtggattgtctagtaaaaagcatccgcgagcatgtgagcctaagcccgaaactaacagaaactttaaagggaaaattgagccttggagcaaaaatccttcaagtaggagggttggagaaaatattcaggcagaagttcagtgttagagatgatgaaaagctattgaatgtttctcaatgctatttatcaacgacagctggtccaatagcaggccttctcttcatctctaccgataagattgctttctgcagcgagagatcaataaagctcttatctccaactggaaagttgcttagaatctactataaggtaaccatcccaataagtaagataatgaaagcaaaagagagcaaaaatatgcaaaagccatcacagaagtatatacaagtaattacagaggatgattttgagttctggtttatgggattcctcaatcatcaaaagacactgagatatctgcagcaggcaatctccagctcaagcaagttatgaagacacatttttttttctaatgagctcgttcttcaatgtaaaacgttcatgcaaaaacgaattcagggatctgttaaaactttgtaactagatccattgctcaaaggaggcttaaggtttaacctttgtgcccttaagagttaatgggaatgtatagacttttttttctctaaaactggtagcttttgtatagacttattttgttttttgagatagcaagagatacgaatgtacaaatttattataaaacttgtggagatagat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="57653" stop="55767"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57450" g_stop="57438" g_length="13"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="13" r_length="13" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="57437" i_stop="57345" i_length="93">
            <donor d_prob="0.000" d_score="0.00"/>
            <acceptor a_prob="0.991" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="57344" g_stop="57270" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="14" r_stop="88" r_length="75" r_score="0.987"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="57269" i_stop="56869" i_length="401">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56868" g_stop="56594" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="363" r_length="275" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="56593" i_stop="56514" i_length="80">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.981" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="56513" g_stop="56067" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="364" r_stop="810" r_length="447" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E555379" ref_strand="-">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>810</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E555379" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="57450" e_stop="57438"/>
          <exon e_start="57344" e_stop="57270"/>
          <exon e_start="56868" e_stop="56594"/>
          <exon e_start="56513" e_stop="56067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAATTAAGCAGAGTGAGTATTTCCCTGGTCCCTTGATGAAGAATCAACTTGATCTAAACCTTGAATGAAGAGATCATAAAAATAACAATATTCTTGAATATGCAGGAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATGGTAAGCGCTTAAAATTCTCTATAAAAGACTTAAATATATCTATTGAAAATATTACTGAGATAATAGTTTGTTTTAAGTCGAAAAATAAGTATTTGAACTTAAAGTTTGTGTCTGGACATGAACTCCATTTGAAAAAAAAAAGAAGGTTAAAGCGAAAACAATTATCTCACTCAAAAATGCTACTCAGACAAGTTAATTCCATACTATACCAGCCTTTCAAATGCTAAAATGTTCACCAATTGCGAATACTGATGGACAAACTTCACCTTTAAGTATTTGCAAGTGAAGTCATGACCAAACACTAGTGTAAATCTAAAGAACTCAGAGAAGTGAGTAATAAGTACAAAATTCATGTAAACATGACAGAAAATATTGATTCTAAATGTACTCTGATTGTGCAGTGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAGGTATAACTCTGCTCCATTTTTCTTCCAACTTTTCATTTTCTAACCACGTAAAGCATAATCTAACTGGTTCACAATGGCAGGTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAAGTTATGAAGACACATTTTTTTTTCTAATGAGCTCGTTCTTCAATGTAAAACGTTCATGCAAAAACGAATTCAGGGATCTGTTAAAACTTTGTAACTAGATCCATTGCTCAAAGGAGGCTTAAGGTTTAACCTTTGTGCCCTTAAGAGTTAATGGGAATGTATAGACTTTTTTTTCTCTAAAACTGGTAGCTTTTGTATAGACTTATTTTGTTTTTTGAGATAGCAAGAGATACGAATGTACAAATTTATTATAAAACTTGTGGAGATAGAT</genome_strand>
        <mrna_strand>CAAATTAAGCAGA.............................................................................................GAAGATATGTCATTTGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATG.................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAG................................................................................GTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAAGTTATGAAGACACATTTTTTTTTCTAATGAGCTCGTTCTTCAATGTAAAACGTTCATGCAAAAACGAATTCAGGGATCTGTTAAAACTTTGTAACTAGATCCATTGCTCAAAGGAGGCTTAAGGTTTAACCTTTGTGCCCTTAAGAGTTAATGGGAATGTATAGACTTTTTTTTCTCTAAAACTGGTAGCTTTTGTATAGACTTATTTTGTTTTTTGAGATAGCAAGAGATACGAATGTACAAATTTATTATAAAACTTGTGGAGATAGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E554065" ref_strand="-" ref_description="SGN-E554065 [cTSC-3-B8]">
      <seq>caaaatgggagaaaagggtggattgtttagtaaaaaagcatccgcgagcatgtgagcgtaagcccgaaactaacagaaactttaaagggaaaattgagccttggagcaaaaatccttcaagtaggagggttggagaaaatattcaggcagaagttcagtgttagagatgatgaaaagctattgaatgtttctcaatgctatttatcaacgacagctggtccaatagcaggccttctcttcatctctaccgataagattgctttctgcagcgagagatcaataaagctcttatctccaactggaaagttgcttagaatctactataaggtaaccatcccaataagtaagataatgaaagcaaaagagagcaaaaatatgcaaaagccatcacagaagtatatacaagtaattacagaggatgattttgagttctggtttatgggattcctcaatcatcaaaagacactgagatatctgcagcaggcaatctccagctcaagcaagttatgaagacacatttttttttgtaatgagctcgttcttcaatgtaaaacgttcatgcaaaaacgaattcagggatctgttaaaactttgtaactagatccattgctcaaaggaggcttaaggtttaacctttgtgcccttaagagttaatgggaatgtatagacttttttttctctaaaactggtagcttttgtatagacttattttgttttttgagatagcaagcagatacgaatgtacaaatttattataaaacttgtggagatagat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="57619" stop="55767"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57319" g_stop="57270" g_length="50"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="52" r_length="52" r_score="0.880"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="57269" i_stop="56869" i_length="401">
            <donor d_prob="0.997" d_score="0.88"/>
            <acceptor a_prob="0.999" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="56868" g_stop="56594" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="53" r_stop="327" r_length="275" r_score="0.996"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="56593" i_stop="56514" i_length="80">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.981" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56513" g_stop="56067" g_length="447"/>
          <reference_exon_boundary r_type="cDNA" r_start="328" r_stop="775" r_length="448" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E554065" ref_strand="-">
        <total_alignment_score>0.987</total_alignment_score>
        <cumulative_length_of_scored_exons>772</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E554065" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="57319" e_stop="57270"/>
          <exon e_start="56868" e_stop="56594"/>
          <exon e_start="56513" e_stop="56067"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAATTGGGAGA-AAGGGTGGATTGTCTAGTA-AAAAGCATCCGCGAGCATGGTAAGCGCTTAAAATTCTCTATAAAAGACTTAAATATATCTATTGAAAATATTACTGAGATAATAGTTTGTTTTAAGTCGAAAAATAAGTATTTGAACTTAAAGTTTGTGTCTGGACATGAACTCCATTTGAAAAAAAAAAGAAGGTTAAAGCGAAAACAATTATCTCACTCAAAAATGCTACTCAGACAAGTTAATTCCATACTATACCAGCCTTTCAAATGCTAAAATGTTCACCAATTGCGAATACTGATGGACAAACTTCACCTTTAAGTATTTGCAAGTGAAGTCATGACCAAACACTAGTGTAAATCTAAAGAACTCAGAGAAGTGAGTAATAAGTACAAAATTCATGTAAACATGACAGAAAATATTGATTCTAAATGTACTCTGATTGTGCAGTGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAGGTATAACTCTGCTCCATTTTTCTTCCAACTTTTCATTTTCTAACCACGTAAAGCATAATCTAACTGGTTCACAATGGCAGGTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAAGTTATGAAGACACATTTTTTTTTCTAATGAGCTCGTTCTTCAATGTAAAACGTTCATGCAAAAACGAATTCAGGGATCTGTTAAAACTTTGTAACTAGATCCATTGCTCAAAGGAGGCTTAAGGTTTAACCTTTGTGCCCTTAAGAGTTAATGGGAATGTATAGACTTTTTTTTCTCTAAAACTGGTAGCTTTTGTATAGACTTATTTTGTTTTTTGAGATAGCAAG-AGATACGAATGTACAAATTTATTATAAAACTTGTGGAGATAGAT</genome_strand>
        <mrna_strand>CAAAATGGGAGAAAAGGGTGGATTGTTTAGTAAAAAAGCATCCGCGAGCATG.................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCGTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAG................................................................................GTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAAGTTATGAAGACACATTTTTTTTTGTAATGAGCTCGTTCTTCAATGTAAAACGTTCATGCAAAAACGAATTCAGGGATCTGTTAAAACTTTGTAACTAGATCCATTGCTCAAAGGAGGCTTAAGGTTTAACCTTTGTGCCCTTAAGAGTTAATGGGAATGTATAGACTTTTTTTTCTCTAAAACTGGTAGCTTTTGTATAGACTTATTTTGTTTTTTGAGATAGCAAGCAGATACGAATGTACAAATTTATTATAAAACTTGTGGAGATAGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E340782" ref_strand="+" ref_description="SGN-E340782 [cTOF-5-I2]">
      <seq>ccacctcaaaccagaatacaatggacttactccgtggaaattcggtgggtattcccatgagttcatcagtaggttcacttgaaagccagccgaaaagactacttgccttacctgcttgcgaagaccatatcgttccatatgcaacttcaaagaacttgtctcaaattaagcagagaagatatgtcattggtaagatgaacaaattgggagaaagggtggattgtctagtaaaaagcatccgcgagcatgtgagcctaagcccgaaactaacagaaactttaaagggaaaattgagccttggagcaaaaatccttcaagtaggagggttggagaaaatattcaggcagaagttcagtgttagagatgatgaaaagctattgaatgtttctcaatgctatttatcaacgacagctggtccaatagcaggccttctcttcatctctaccgataagattgctttctgcagcgagagatcaataaagctcttatctccaactggaaagttgcttagaatctactataaggtaaccatcccaataagtaagataatgaaagcaaaagagagcaaaaatatgcaaaagccatcacagaagtatatacaagtaattacagaggatgattttgagttctggtttatgggattcctcaatcatcaaaagacactgagatatctgcagcaggcaatctccagctcaagcaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="57912" stop="56037"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57612" g_stop="57438" g_length="175"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="174" r_length="174" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="57437" i_stop="57345" i_length="93">
            <donor d_prob="0.000" 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="57344" g_stop="57270" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="175" r_stop="249" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="57269" i_stop="56869" i_length="401">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56868" g_stop="56594" g_length="275"/>
          <reference_exon_boundary r_type="cDNA" r_start="250" r_stop="524" r_length="275" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="56593" i_stop="56514" i_length="80">
            <donor d_prob="0.996" d_score="1.00"/>
            <acceptor a_prob="0.981" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="56513" g_stop="56338" g_length="176"/>
          <reference_exon_boundary r_type="cDNA" r_start="525" r_stop="700" r_length="176" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E340782" ref_strand="+">
        <total_alignment_score>0.999</total_alignment_score>
        <cumulative_length_of_scored_exons>701</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E340782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="57612" e_stop="57438"/>
          <exon e_start="57344" e_stop="57270"/>
          <exon e_start="56868" e_stop="56594"/>
          <exon e_start="56513" e_stop="56338"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCACCTCAAACCAGAATCACAATGGACTTACTCCGTGGAAATTCGGTGGGTATTCCCATGAGTTCATCAGTAGGTTCACTTGAAAGCCAGCCGAAAAGACTACTTGCCTTACCTGCTTGCGAAGACCATATCGTTCCATATGCAACTTCAAAGAACTTGTCTCAAATTAAGCAGAGTGAGTATTTCCCTGGTCCCTTGATGAAGAATCAACTTGATCTAAACCTTGAATGAAGAGATCATAAAAATAACAATATTCTTGAATATGCAGGAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATGGTAAGCGCTTAAAATTCTCTATAAAAGACTTAAATATATCTATTGAAAATATTACTGAGATAATAGTTTGTTTTAAGTCGAAAAATAAGTATTTGAACTTAAAGTTTGTGTCTGGACATGAACTCCATTTGAAAAAAAAAAGAAGGTTAAAGCGAAAACAATTATCTCACTCAAAAATGCTACTCAGACAAGTTAATTCCATACTATACCAGCCTTTCAAATGCTAAAATGTTCACCAATTGCGAATACTGATGGACAAACTTCACCTTTAAGTATTTGCAAGTGAAGTCATGACCAAACACTAGTGTAAATCTAAAGAACTCAGAGAAGTGAGTAATAAGTACAAAATTCATGTAAACATGACAGAAAATATTGATTCTAAATGTACTCTGATTGTGCAGTGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAGGTATAACTCTGCTCCATTTTTCTTCCAACTTTTCATTTTCTAACCACGTAAAGCATAATCTAACTGGTTCACAATGGCAGGTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAA</genome_strand>
        <mrna_strand>CCACCTCAAACCAGAAT-ACAATGGACTTACTCCGTGGAAATTCGGTGGGTATTCCCATGAGTTCATCAGTAGGTTCACTTGAAAGCCAGCCGAAAAGACTACTTGCCTTACCTGCTTGCGAAGACCATATCGTTCCATATGCAACTTCAAAGAACTTGTCTCAAATTAAGCAGA.............................................................................................GAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATG.................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAG................................................................................GTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E254540" ref_strand="+" ref_description="SGN-E254540 [cLEG-29-M24]">
      <seq>tcccacataccttcaaaatacagtaatactccacctcaaaccagaatcacaatggacttactccgtggaaattcggtgggtattcccatgagttcatcagtaggttcacttgaaagccagccgaaaagactacttgccttacctgcttgcgaagaccatatcgttccatatgcaacttcaaagaacttgtctcaaattaagcagagaagatatgtcattggtaagatgaacaaattgggagaaagggtggattgtctagtaaaaagcatccgcgagcatgtgagcctaagcccgaaactaacagaaactttaaagggaaaattgagccttggagcaaaaatccttcaagtaggagggttggagaaaatattcaggcagaagttcagtgttagagatgatgaaaagctattgaatgtttctcaatgctatttatcaacgacagctggtccaatagcaggccttctcttcatctctaccgataagattgctttctgcagcgagagatcaataaagctcttatctccaactggaaagttgcttagaatctacta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="57942" stop="56298"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57642" g_stop="57438" g_length="205"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="205" r_length="205" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="57437" i_stop="57345" i_length="93">
            <donor d_prob="0.000" 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="57344" g_stop="57270" g_length="75"/>
          <reference_exon_boundary r_type="cDNA" r_start="206" r_stop="280" r_length="75" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="57269" i_stop="56869" i_length="401">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="56868" g_stop="56598" g_length="271"/>
          <reference_exon_boundary r_type="cDNA" r_start="281" r_stop="551" r_length="271" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E254540" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>551</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E254540" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="57642" e_stop="57438"/>
          <exon e_start="57344" e_stop="57270"/>
          <exon e_start="56868" e_stop="56598"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCCACATACCTTCAAAATACAGTAATACTCCACCTCAAACCAGAATCACAATGGACTTACTCCGTGGAAATTCGGTGGGTATTCCCATGAGTTCATCAGTAGGTTCACTTGAAAGCCAGCCGAAAAGACTACTTGCCTTACCTGCTTGCGAAGACCATATCGTTCCATATGCAACTTCAAAGAACTTGTCTCAAATTAAGCAGAGTGAGTATTTCCCTGGTCCCTTGATGAAGAATCAACTTGATCTAAACCTTGAATGAAGAGATCATAAAAATAACAATATTCTTGAATATGCAGGAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATGGTAAGCGCTTAAAATTCTCTATAAAAGACTTAAATATATCTATTGAAAATATTACTGAGATAATAGTTTGTTTTAAGTCGAAAAATAAGTATTTGAACTTAAAGTTTGTGTCTGGACATGAACTCCATTTGAAAAAAAAAAGAAGGTTAAAGCGAAAACAATTATCTCACTCAAAAATGCTACTCAGACAAGTTAATTCCATACTATACCAGCCTTTCAAATGCTAAAATGTTCACCAATTGCGAATACTGATGGACAAACTTCACCTTTAAGTATTTGCAAGTGAAGTCATGACCAAACACTAGTGTAAATCTAAAGAACTCAGAGAAGTGAGTAATAAGTACAAAATTCATGTAAACATGACAGAAAATATTGATTCTAAATGTACTCTGATTGTGCAGTGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTA</genome_strand>
        <mrna_strand>TCCCACATACCTTCAAAATACAGTAATACTCCACCTCAAACCAGAATCACAATGGACTTACTCCGTGGAAATTCGGTGGGTATTCCCATGAGTTCATCAGTAGGTTCACTTGAAAGCCAGCCGAAAAGACTACTTGCCTTACCTGCTTGCGAAGACCATATCGTTCCATATGCAACTTCAAAGAACTTGTCTCAAATTAAGCAGA.............................................................................................GAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATG.................................................................................................................................................................................................................................................................................................................................................................................................................TGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E222998" ref_strand="+" ref_description="SGN-E222998 [cLEL-14-K6](-)">
      <seq>tatggaaaagccatcacaaaagtatatacagttagttacagaggacgattacgagttctggtttatggggttctttaataatcaaaaaactctaagatatctgcagcaggcaatttcaactttcacaaacttcaatcagctaagacgatagttttttaattttattttgtttcctaatacacccattcatcaatgtaaaatgttgatgcaagatgcagatatgttcaaacttgtaactagctccattgctcaaaggaggttttagattttttaggctttaagcctaagttgttaatacgaatgtatagacttattgtaaaactaatcaaacaggaggctaattcatcttaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="62752" stop="61804"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62452" g_stop="62104" g_length="349"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="349" r_length="349" r_score="0.997"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="350" polyA_stop="370"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E222998" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>349</cumulative_length_of_scored_exons>
        <coverage percentage="0.943" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E222998" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62452" e_stop="62104"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TATGGAAAAGCCATCACAGAAGTATATACAGTTAGTTACAGAGGACGATTACGAGTTCTGGTTTATGGGGTTCTTTAATAATCAAAAAACTCTAAGATATCTGCAGCAGGCAATTTCAACTTTCACAAACTTCAATCAGCTAAGACGATAGTTTTTTAATTTTATTTTGTTTCCTAATACACCCATTCATCAATGTAAAATGTTGATGCAAGATGCAGATATGTTCAAACTTGTAACTAGCTCCATTGCTCAAAGGAGGTTTTAGATTTTTTAGGCTTTAAGCCTAAGTTGTTAATACGAATGTATAGACTTATTGTAAAACTAATCAAACAGGAGGCTAATTCATCTT</genome_strand>
        <mrna_strand>TATGGAAAAGCCATCACAAAAGTATATACAGTTAGTTACAGAGGACGATTACGAGTTCTGGTTTATGGGGTTCTTTAATAATCAAAAAACTCTAAGATATCTGCAGCAGGCAATTTCAACTTTCACAAACTTCAATCAGCTAAGACGATAGTTTTTTAATTTTATTTTGTTTCCTAATACACCCATTCATCAATGTAAAATGTTGATGCAAGATGCAGATATGTTCAAACTTGTAACTAGCTCCATTGCTCAAAGGAGGTTTTAGATTTTTTAGGCTTTAAGCCTAAGTTGTTAATACGAATGTATAGACTTATTGTAAAACTAATCAAACAGGAGGCTAATTCATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E223364" ref_strand="+" ref_description="SGN-E223364 [cLEL-14-K6](-)">
      <seq>gttctggtttatggggttctttaataatcaaaaaactctaagatatctgcagcaggcaatttcaactttcacaaacttcaatcagctaagacgatagttttttaattttattttgtttcctaatacacccattcatcaatgtaaaatgttgatgcaagatgcagatatgttcaaacttgtaactagctccattgctcaaaggaggttttagattttttaggctttaagcctaagttgttaatacgaatgtatagacttattgtaaaactaatcaaacaggaggctaattcatcttaaaaaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="62698" stop="61804"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="62398" g_stop="62104" g_length="295"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="295" r_length="295" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="296" polyA_stop="316"/>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E223364" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>295</cumulative_length_of_scored_exons>
        <coverage percentage="0.934" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E223364" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="62398" e_stop="62104"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTCTGGTTTATGGGGTTCTTTAATAATCAAAAAACTCTAAGATATCTGCAGCAGGCAATTTCAACTTTCACAAACTTCAATCAGCTAAGACGATAGTTTTTTAATTTTATTTTGTTTCCTAATACACCCATTCATCAATGTAAAATGTTGATGCAAGATGCAGATATGTTCAAACTTGTAACTAGCTCCATTGCTCAAAGGAGGTTTTAGATTTTTTAGGCTTTAAGCCTAAGTTGTTAATACGAATGTATAGACTTATTGTAAAACTAATCAAACAGGAGGCTAATTCATCTT</genome_strand>
        <mrna_strand>GTTCTGGTTTATGGGGTTCTTTAATAATCAAAAAACTCTAAGATATCTGCAGCAGGCAATTTCAACTTTCACAAACTTCAATCAGCTAAGACGATAGTTTTTTAATTTTATTTTGTTTCCTAATACACCCATTCATCAATGTAAAATGTTGATGCAAGATGCAGATATGTTCAAACTTGTAACTAGCTCCATTGCTCAAAGGAGGTTTTAGATTTTTTAGGCTTTAAGCCTAAGTTGTTAATACGAATGTATAGACTTATTGTAAAACTAATCAAACAGGAGGCTAATTCATCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329081" ref_strand="+" ref_description="SGN-E329081 [cTOC-24-J7]">
      <seq>ataaatacaaaagaagaaacagccaaaccaaagagaatttatcgttcaaggaaaagggatggaacactccattgaaatagatgatcaaattccactgctttctcaaacttatcaagatgagatagaaggagggaggaaagtggatcctttatttgagaatttattcaattcgcgtgttaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtacctacgacggtttcttagacgaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatagaagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagtttattcgagagcgttttgagataggcccaagacaagaagacgaaatcatcaaaagtgacattggttgcatatataatcaaatactccgagatttgatgttactagaaaaccaacttcctttctttgtcctcgacaagcttcatgagatgacaaagcaagatgatgaactcccattggcaatacaagctgtgatctcatttactttttttgttgacttagaaaaattgatcgatcaacataagtatgaaccccttataatatagcatctaacgcacgtgatatcaaacatttacttcatgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="86668" stop="96046"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="86964" g_stop="86998" g_length="35"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="35" r_length="35" r_score="0.800"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="86999" i_stop="94708" i_length="7710">
            <donor d_prob="0.979" d_score="0.00"/>
            <acceptor a_prob="0.996" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="94709" g_stop="94794" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="36" r_stop="121" r_length="86" r_score="0.977"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="94795" i_stop="95083" i_length="289">
            <donor d_prob="0.992" d_score="1.00"/>
            <acceptor a_prob="0.861" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95084" g_stop="95746" g_length="663"/>
          <reference_exon_boundary r_type="cDNA" r_start="122" r_stop="783" r_length="662" r_score="0.950"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E329081" ref_strand="+">
        <total_alignment_score>0.953</total_alignment_score>
        <cumulative_length_of_scored_exons>784</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E329081" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="86964" e_stop="86998"/>
          <exon e_start="94709" e_stop="94794"/>
          <exon e_start="95084" e_stop="95746"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTTGACACAAAAGAAGAAACAGCCAAACTAAATTGGTAATTTTCTGCATTTTCTCGTTCTTTGCTAAAATAATATCAATTTATTATAGCTAAAACGTTACCCATAGTAATGTTTCTTTAGAATTCTAGTGATTTTTACATATATATATATATATATATATATATATATATTATTTATTAAGTCTATAGTCTACTCCGTAGAATATCAACTAAATTTTCCTATGTTCACAAAAAGAGGATGAATTCTCAAATCTCAACCTTGAGTCTATGAATGATCCTTTAATTTGCCTTTGCCTTTGCCTCCAACGTTATTACAAGTAACGTAATTATCTAGAAAACGTGTCTCAGAGTGACGAATTATAGAACCTTATTAATAATAACATTTTATATTTATTTTACTCTGTCAGACCTTTATCTTTTTGTCATTGAATTCTATTGAATGAAATAAAGCCAAAACATTATTAAGAAATATTTTTCTTCTAATTTTGTAAAATTTAAACAACTCTCAACTATATAAATTAATTTTTTTTATTTCATTAACTCATTTTTCTTTTGGCAATTAACAATATAATCTTTTGCTATATAAGTGCATGAATTTCAAGAGATTATAGAATTTTTTAGACTATTTCCTTTCATATAATCGTGGTTTTACAATTATTGGGTTCTTTTTATTTGAGTCCGGTTTGGAGGGGTAATTTTTTAAAGTCACGTGATATTTTTAAAATTAAAAATTAATAATATATATTTTTTAATTCATTCTATTTACAGGGTAAATATGCATCATTTACACTATGTTTGGATCATTGTTATCTATTGTATTGTATTGTGTTGGTACTATACCTACAATGTTTGTTTTGATTGTTACTTAAAATGTATTGTACTGTATTGTTAAATTTCGTTGTTACGTAACAATGAAATCCCTATTTTATGGAACAACCAATTTGGTGTGTTCCCGTTGTTACTTAATTTCTTTTTTCAGTTATATCTTTACATCATATTTTAAAATACTATTTTACCCTCACCTTAATTATTTAAATCTAGTCAAACCTCTTACCCTAGAATAATTAAGGACAATTAAGTAAATTTATAAATTACAATACAGTACGATATAATCAAACCAAACAATTAAAATGTTACTAAACAACAAATAAATAATATAATCTAGTCAAACATTGTATCTACCATACAATACAGTATATTTGAGTTCAATACAATACATACACTATTAAACGGTAACAATGATCTAAACAAAATGGTAAAGGGCATGTTTGGCAACACTTTAACTTTAACTTTCCACATGACATGTTTAAGACCACAAGATTAAAGGGCATTTTGGTACATTTGACATAACTTCAATTTAGAACCACAAGATTAAAAAGTTTTCTTTCTTTTTTTAAACTCTGTTCCAAGTCAAACTAGGACATTCTTTTTGAAACGAAAGAAGTATGTAAATTTCCTAATAAGTTATAACTAATCCATACATTACTCATACATGCATAACTTTAATATGCTACCAAACAACCCCTTTAAGGTATACAATACACATTATTCTTTTAAAATTTTTTTGCAATTAAGTGTCTAATACTCCCTCAATTTTCCATTAATGTATTACTTTGGATAATAACAATAATAGTCATGGTATCTAATTACAAAGAATGTGTCTTTTGTAGGATTTATCGTTCAAGAAAAAGGGATGGAACACTCCATTGAAATTAATGTGTCTACCCTCACATCCTTAACCCACATGCCGATCTTAATTGTGGTTGCTTTGATTTTATACAAATATTATTTTCAAATATTACATTTAACTTATTTATCAAACATTAAAAATAAATAAGAATCTTACATATTTTCATAAAAATAATAGCAAATCTTCCATCATACTGAACACACCCTAAACACTTACCAAATTTAAGAATAAATAGTGGCTTGAACACACACTCAAAGTGTTATTCTATGATATGTTTTCTTAAATATAATGTCTATATACACTTTATTCTATTATACTTAAAACTTTATTTATTCTCTTATACATTACTCAAAATGCACACAATTTCATGTAAGTAATATAAGTAGGTTCGCAATTAATCTATATATAGTAAGCCCATATACAATTTGATATTCATCATCTCTCATATTCCTTCACCTTCATAACAATTGAGCGGAGCAAAATAATTTAAGAAGAAACTCAAGTGCAATCCAACTAGTCCATTTTGAATCAGGTAATTTTTAAATGTCTTATATAACATCCTATCCAATACACTATAACAAATAAAAAAAATTTGTGAGAATATTAATTATAATTTCTATTATATTATATTTAATGGTAATAATATAATATGGATATTTAATAACCAACATTATAGATAAATTTGATTAAGTAGTAATTGTCTCAATCGTACCTAAAGTTCCATCTCCTAAACAAAATACTAGTATGCTACTTATATTGATTACGAGGTATTTTATTAATTCGAGTAGTAAGTTGTAAGATATTAGATATCTTTATTTTAATATAGGGGGAAAAATCTGATATATCCCTCAACTTTGTCATTTAGAGCTAATATACGCCTTGTTATGAAAGTGGCCCATATATATCCCTACTTGTAAATAAATGGCTCACATATACCCTTTTCCTCTAACGGAAATGAAAAAAATATTAATTTTAATCTAATTTTTTATTAATTTTTTCTAAAAATATAATCCCATATGAGTAATTTAATCCTCGTCAAACATATTTTTTTTGATTTTTTTTTGTTTCAATGACTAATTTATAATTATTATTTTGATAATCAAATTTATTTATGTTTCACTAATATTCTTGTAAAACTTATTGTAGATGATCAGTTTTTTTCTTCGAATACGAAATTAAATTACAATACACACAAAAAAATAGTTTAATTTTTTATTCTTTAAATTAAGGAATGAAAGAAAAAAACAAAATAAGAATAAGAAATTCAAATAATTATGATATAAGAAGTCAAAAAATAATTTATGTATTAAAAAAATTAAAATATACCTTGAACTTTGATAGAAGAATCATATGTACCATAAATATTTTTTTAAAAAAAATTAGAAGTAATAAATATAAATTTAAAACTAATTTTTTAACTTCCGTTAAATGAAGGATATATGTGAGTCATTTTCTAACGGCAGGGCTATATGTGAGCCATTTTGTAACGGCAGGGGTATATGTGAGCCGTTTATATAACGGTAAGGGCATATATGTGCCACTTTTATAACGAGGGGTATATCAGCTCCAAATGACAAAGTTGAGAGGTATATCAGACCCTATTCCCTTTTATGTATGTATTAATATGTAAAGATTAGCTATTCTGCATAAGTTATTCTATTCTATCTTGCATAAAATAATACATAGATTCTCTCATATCTTATAATACATATATATCATATACGAGTTTCTAAGTTGTCAATCAAATGTCATATTAATATCTACCTACCAATTAACACCATATAAATTATAGAATAATTAATAAGTGAATAACTTTTTTCTTATAAATTGATATTATTACCTCTTTGGTTTGGCTGTTTCTTCTTTTGTATTTATTCAACTCTTGCTTCTCCCGGATTTTTCATTGCTATGAAGTACTTATTATGTATAGAGAAAAAAAAGAGAGAGATTGATAAATACTGTTAATTGTAGGGTAGGGGGTGTCAATGTTAGGTTCGATCGATTATTTTATAAAATTTATCCAAAGGTATAGTATCATCTTCAACTTCATCATCTCATTATTTTTTTGGGTGGTATTCACAATTTCTTCTATGTTCTGGACCTCTTAACATGTTTCACTGTCACTCGGATAATCCAACAGGTTATTGACATCCATTTTATTTTGGTAACCGAGACCATTAATCAATGACCTCAAGTTCATTAGTGAGGTTTTCACAAGTAGGTTCATTATAATTCTCTGAGATTACATCCCCTGAACGAATTTTACATTGTCGAAAAACTATTTGTGATTATCTCTTGCTGAACATTTTTTGTCCAAACAGGGATTGCAAAATTGACAACATCCAAAATATTAATCTTTAGTGGATTAGTTTGTTCCACTACATAGTCTTCTAATATTCTACAATGAAATATCTTGAAAACTCTTATTATCCCAACATCACAAGAATGAAATTAGTAAGATACAATAATTTGATATATTCGTTGTATTTATGTATCACATTTTTTAATGTGAAATCAATAAATTAAATATGATACATAAACTTGTAAGATACAATGATTTTGATATATTCAAAATTAACCTTCATTAAAACTTAAATCATTCTTTAAATTAATATATATATATTATCGATTACATAATATCTCTATAATATAATAAAATGTCATGATCCAACTATATTAATTTATATAGATTTTACCGTAGTAAAAAGGACTACATTTTCTTTGTTGCTGTTAATAAAAGTCGTAGGACTATTCTTGTAATTTCTTATTCTTCGACTTCTAGCTATTGCTATTTATGATTTCGTGTAGTTCAATTATAATATTATTTTGTTGTAGTACTGTTATGCTATACTATTTTTTTTATAAAAAAAACTATCTATTGCTTTTTGTACTTAATTTTATTACGTCTTTTCTGAATTGTTTTTATCTTGAGCCGAAGATCTATCGAGAATAACCTCTTCATATCACATAATACCAAGTATACTTTCGTAGAATAATTTTAAAAACTCTCTAGACACTTTTACAATTTAAAAAGTATGAATCAAATAATATAATCGGAGGTAACAATAAATATTCATCCCACTATTTTACCGTAATGTAAAATGGAGTTAAACAAAGATAGAAAAATTGAAACGTATGGGCTCAAGAATTAGGTTTACTAAAATTAAGTATCTATTTAATAAGAGATTTAGTATCGTGGCTTTTCGATATTTAATATTTTATATTTTTATTGGGTGTGTTTGGTAAGAAGGAAAATGTTTTTCGTTGAAATTTTTTTCTTAAAAAACATGTTGATTTCTAACTTATTTTCTCATGTTTGGTTGGTGAGTGAAAAAATATTTCCTATTATTTGATTAATGAATGAAAATATTTTTTTCTCCAGAATTTATCTTTTATTTTATGAATAGAGAGTAGAAAATCTCTTTAGGAAAATAATTTCTAACATAAAAATCAACCCCACCCCAACGACCGATTCGAGACTGGTCCCCATGACCGATTCGGGATCCGACCTTAATCCCCAAATTAGGAGACCCTAACTCCTAATCCAAAACATGGTATTCGAATTGAGACCTGACCCTGACCCTGACATCTGATCCAAGACTTGACTTCAACTCTCGATTCGAGACTCGATCCCAACCTCGACACCCGAACCAACACAAGACCCCAACGATCTATTCAAATTCCAACTCTAAGACCTAAACCTAACTTTTGCCCGAGACCTAACATTCAAAAAATGACCCCACCCCGACACTTGCATCGACATTCGATATGGGACCTAGCCCCGACTCCCAATCTAGAACTCAACTTTCGAACGGGGACGGCGGGACCCAACTCGACTTCCGACCCAAGATTCAACTTCCAAATTGAGATTCGACCCTGACTATCAAATCGGGACTCGGGTCCACCCTGACTAGGAACCTGACTTCCGAATCGGGATTTAAATTTCTTATTTTAAAAAAAATAATTCTTTTTTGGCGGTGGGGTGGTAAGGAGTTGAGATAGGAGTGGAATAAAAATAACAGAAATAGTTAAAATTTGAAATATTTGTAAAAAAACAAACTGGGTGGACCGGTGGGGGTAAAAATCAGAAATTTTTAAAATTTGAGGTTTTTCAATCTTTTTACGTTGGGGGTTGAGGCTAGTTTAGAGGTAGGCATTAATAAAATGAAATTATTTTTAAAAAAAAAAATTAAAATTTTTAAATTTTAACTTGGAGAAGAGTTTAATTATTTACTTTATTTTTAAAGGTAAGTTATTTTTTAAAATTTTAAAAAAAAAGTTTGAATTGAAAAATATTTTCCAAATATTTAATCCAACCGAATATATCACTCAAACACACCTGTTCTTGGCCGACGACTCAAGTCAATGACTAAATATTTTCCACTATATTTAACTTTTGAGTACGAAAGTTAGGTCTAAAATTAATATCACAAAGATAAGGTAGTTGAGAAGGTTCTTTAATACCACAACAAAAAGTACAAACATATTATTTAATTTTAGTTTCAAGAAGACTTTATTTCTCTGTCTCCTTTTGAGTAAATTAATTATCAAGTATATCATCAACGAGGATCTATTTGAAGTTGAGAGTACTCTTTATTTTTAATCAAAAGTCTTAACTGTTAGGGAACACTTTACTTTTTTTCTTTTAGCCATTAATATGAAACTTTGTTCACACATTTTCAATAATCGAACAGGCAAAGAAACTAAGTTGAACCCTATCCTATCTTGCCAAACCACTTACCAATATGAAATAACATATATATATATATATATATATATATATATATATATATATATATTAAAACTCTATAAAACGTGTTTAATTCAAGAGAAAAGGGTCTGATATACTCCTCAACTTTGTCATTTGTAGCTGATATACCCCTCGTTGTGAAATTGGCTCATACATACCCTTACCGTTATACAAACGGCTCACATATACCCCTGCCGTTACAAAATGGCTCACATAAACCCTTCATTTAACGGAAGTTTTAAGAAAATTAGTTTTAAATTTATATTTATTACTTTTAGGGGTATATATGATTCTTCTATCAAAGTTCAAAGTATATTTTAATTTTTTTAATACATCAATTATTTTTTGACTTCTTTTATTATAATTATTTGAGTTTCTTATTCTTACATTGTTTTTTTCTTTCATTCCTTTGTTTAAAGAAAAAAAAATTAAACATTTTTTTGTCTATATTGTAGTTTGATTTTTGTATTCGAAGAAAAAAATTTGATCATCTACAATAAGTTTTACAAGAATATTAGTGAAACATAAATAAATTTGATTATCAAAATAATAATTCTAAATTAGTCATTGAAACAAAAAAAAGTCAAAAAAATATGTTTGACGAGGATTAAATTTACTCATATAGGATTATATATTGTAGAAAAAATAATAAAAATTTAGATTAAAATTATCTTCTTTTTTTTTCATTTCCGTTAGAGGAAAAGGGTATATGTGAGTCATTTGTTTATAAGTAGGGGTATATATGAGTCAATTTCATAACAAGGGGTATATCAACTCCAAATGACAAAATTTAGGGGTATATCAGACCGTTTTCCCTACATAAAATAATATTCCCTTTGTTTCAAAAAGAATGTCCATATTTCATTTTTAATTTGTTTAAAAAAGAATGACCCCTTTTCTTTTTTGACAACACTTTAACTTTTCACGTAACATGTTTAAGACCACAAGATTAAAGGACATTTTGGCACATTTGACATAACTTTAATTTAGAATCACAAGATTAAAAAATCTTCTTTCTTTTCTTAAATTATGTTCCAAGTCAAACTGGGGCATTCTTTTTTAAACGAAAGAAGTATATAGATTTCCTCATAAGTTATAACTAATCCCTACATTACTCATACCTGCGTAACTTTAATATGCTACCAAACAACCCCTGTAAGGTATACAATACACATTATATTCTTAATTTTTTATTTTTTTTTGCAATTAAGTGTCTAATACTCCCCCAATTTGCCATTAATGTATTGCTTTGGATAATAACAATAATAGTCATGGTATCTAATTACAAAGAATGTGTTTTTTGTAGGATTTATCGTTCAAGAAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAGGTTTTTTTTTTCTCTCAACTATACAAATATATAATTTTTTAGATTATTTCCTTTCCTATAATTTTAGGGACAAAGAACATAGATGAGTAAGTTTTTAAAGTCAAATGATATTTTTAGAATTAAAAAATTCTTAATTCGTCGTGTTTATAAAATGCATAAAGAAAGAAAGAAGGTATATATGCACTAATTTTTTTTTATCGAGACATATATTCGATCTACAAAATTGAGACCTTTTACACTTAACAAAAAAAAGTTGTTTCTAATAAACATTTTACCCTTTTAGTTACAGATAGAAGGAGGGATGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGTCTTGATTTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAATATTGGAAGCCGCGAATTTTGCAAGATGTTGTTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTGTTGAGATAGGCCCAAGACTAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAAGCAAATACTCCGAGATTTGATGTTACTAAAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGATATCCCATTGGCAATACAAGCTGTGAAGTCGTTTACTTCTTTTGTTGACATAGAAGAAATTATCCATAAACATTCCGATTCACCCTTAATAAAGATAGCATCTAACGCAGGTGATATCAAACATTTACTTCATGCA</genome_strand>
        <mrna_strand>ATAAATACAAAAGAAGAAACAGCCAAACCAAAGAG..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG.................................................................................................................................................................................................................................................................................................ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAATCAAATACTCCGAGATTTGATGTTACTAGAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGAACTCCCATTGGCAATACAAGCTGTGATCTCATTTACTTTTTTTGTTGACTTAGAAAAATTGATCGATCAACATAAGTATGAACCCCTTAT-AATATAGCATCTAACGCACGTGATATCAAACATTTACTTCATGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E689168" ref_strand="+" ref_description="SGN-E689168 [t3_tus_80_G10]">
      <seq>cctttaaaaaagaaacagccaaaccaaagagaatttatcgttctatgaaaagggatggaacactccattgaaatagatgatcaaattccactgctttctcaaacttatcaagatgatatagaaggagggaggaaagtggatcctttatttgagaatttattcaattcgcgtgttaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtacctacgacggtttcttagacgaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatagaagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagtttattcgagagcgttttgagataggcccaagacaagaagacgaaatcatcaaaagtgacattggttgcatatatnatcaaatactccgagatttgatgttactagaaaaccaacttcctttctttgtcctcgacaagcttcatgagatgacaaagcaagatgatgaactcccattggcaatacaagcttacacatactttcatgtcatgggaaccccacgaaaacatcaaaagacgacacaacgtggactaaggccatgcccaatgcaactgagctttctgaagctggagtta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="94407" stop="96152"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="94709" g_stop="94794" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="32" r_stop="117" r_length="86" r_score="0.942"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="94795" i_stop="95083" i_length="289">
            <donor d_prob="0.992" d_score="0.98"/>
            <acceptor a_prob="0.861" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="95084" g_stop="95632" g_length="549"/>
          <reference_exon_boundary r_type="cDNA" r_start="118" r_stop="666" r_length="549" r_score="0.976"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="95633" i_stop="95747" i_length="115">
            <donor d_prob="0.070" d_score="0.96"/>
            <acceptor a_prob="0.248" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="95748" g_stop="95852" g_length="105"/>
          <reference_exon_boundary r_type="cDNA" r_start="667" r_stop="771" r_length="105" r_score="0.990"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E689168" ref_strand="+">
        <total_alignment_score>0.974</total_alignment_score>
        <cumulative_length_of_scored_exons>740</cumulative_length_of_scored_exons>
        <coverage percentage="0.960" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E689168" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="94709" e_stop="94794"/>
          <exon e_start="95084" e_stop="95632"/>
          <exon e_start="95748" e_stop="95852"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTTATCGTTCAAGAAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAGGTTTTTTTTTTCTCTCAACTATACAAATATATAATTTTTTAGATTATTTCCTTTCCTATAATTTTAGGGACAAAGAACATAGATGAGTAAGTTTTTAAAGTCAAATGATATTTTTAGAATTAAAAAATTCTTAATTCGTCGTGTTTATAAAATGCATAAAGAAAGAAAGAAGGTATATATGCACTAATTTTTTTTTATCGAGACATATATTCGATCTACAAAATTGAGACCTTTTACACTTAACAAAAAAAAGTTGTTTCTAATAAACATTTTACCCTTTTAGTTACAGATAGAAGGAGGGATGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGTCTTGATTTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAATATTGGAAGCCGCGAATTTTGCAAGATGTTGTTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTGTTGAGATAGGCCCAAGACTAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAAGCAAATACTCCGAGATTTGATGTTACTAAAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGATATCCCATTGGCAATACAAGCTGTGAAGTCGTTTACTTCTTTTGTTGACATAGAAGAAATTATCCATAAACATTCCGATTCACCCTTAATAAAGATAGCATCTAACGCAGGTGATATCAAACATTTACTTCATGCAGTACACATACTTTCATGTCATGGGAACCCCACGAAAACATCAAAAGACGACACAACGTGGACTAAGGCCATGCCAAATGCAACTGAGCTTTCTGAAGCTGGAGTTA</genome_strand>
        <mrna_strand>AATTTATCGTTCTATGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAT.................................................................................................................................................................................................................................................................................................ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATNATCAAATACTCCGAGATTTGATGTTACTAGAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGAACTCCCATTGGCAATACAAGCT...................................................................................................................TACACATACTTTCATGTCATGGGAACCCCACGAAAACATCAAAAGACGACACAACGTGGACTAAGGCCATGCCCAATGCAACTGAGCTTTCTGAAGCTGGAGTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E327115" ref_strand="+" ref_description="SGN-E327115 [cTOC-18-P20]">
      <seq>aggaaagtggatcctttatttgagaatttattcaattcgcgtgttaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtacctacgacggtttcttagacgaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatagaagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagtttattcgagagcgttttgagataggcccaagacaagaagacgaaatcatcaaaagtgacattggttgcatatataatcaaatactccgagatttgatgttactagaaaaccaacttcctttctttgtcctcgacaagcttcatgagatgacaaagcaagatgatgaactcccattggcaatacaagctgtgatctcatttactttttttgttgacttagaaaaattgatcgatcaacataagtatgaacccttaataaatatagcatctaacgcacgtgatatcaaacatttacttcatgcagtacacatactttcatgtcatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="94796" stop="96068"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="95096" g_stop="95768" g_length="673"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="673" r_length="673" r_score="0.955"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E327115" ref_strand="+">
        <total_alignment_score>0.955</total_alignment_score>
        <cumulative_length_of_scored_exons>673</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E327115" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="95096" e_stop="95768"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGTCTTGATTTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAATATTGGAAGCCGCGAATTTTGCAAGATGTTGTTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTGTTGAGATAGGCCCAAGACTAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAAGCAAATACTCCGAGATTTGATGTTACTAAAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGATATCCCATTGGCAATACAAGCTGTGAAGTCGTTTACTTCTTTTGTTGACATAGAAGAAATTATCCATAAACATTCCGATTCACCCTTAATAAAGATAGCATCTAACGCAGGTGATATCAAACATTTACTTCATGCAGTACACATACTTTCATGTCATG</genome_strand>
        <mrna_strand>AGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAATCAAATACTCCGAGATTTGATGTTACTAGAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGAACTCCCATTGGCAATACAAGCTGTGATCTCATTTACTTTTTTTGTTGACTTAGAAAAATTGATCGATCAACATAAGTATGAACCCTTAATAAATATAGCATCTAACGCACGTGATATCAAACATTTACTTCATGCAGTACACATACTTTCATGTCATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E211327" ref_strand="+" ref_description="SGN-E211327 [cLEC-70-B4]">
      <seq>aatgtagggattagttataacttatgaggaaatctatatactttctccatttcaaaaagaatgccctagtttgacttggaacaaagtttaagaaaagaaagaagactttttaattttgtggttttaaagtgttgccaaaaaggaaatagagacattctttttttaaacggagggagtattattttatgtatgtattattaatatgtaaagattagttattcatgcataagttattctattctatctcgcataaaataatacatagattctctcatatcttataatatatatacatcttatacgagtttctaaattgtcaatcaaatgtcatattaatgcctacctaccaattaacaccatataaattatacaataattaataagtgaataactttttccttataaattgatattattacctctttggtttggctgtttcttcttttgtatttattcaactcttgcttctctcggatttttcattgctatgaagtacttattatatagagaaaaaaaagaagagagagattgataaatactgttaattgtagggtagggggtgtcaatgttangttcgatcgattattttataaaatttaaataaaggtatagtatcatcttcaacttcatcatctca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="-" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="108905" stop="107670"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108605" g_stop="107970" g_length="636"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="637" r_length="637" r_score="0.995"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="-" ref_id="SGN-E211327" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>636</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E211327" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108605" e_stop="107970"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATGTAGGGATTAGTTATAACTTATGAGGAAATCTATATACTTTCTCCATTTCAAAAAGAATGCCCTAGTTTGACTTGGAACAAAGTTTAAGAAAAGAAAGAAGACTTTTTAATTTTGTGGTTTTAAAGTGTTGCCAAAAAGGAAATAGAGACATTC-TTTTTTAAACGGAGGGAGTATTATTTTATGTATGTATTATTAATATGTAAAGATTAGTTATTCATGCATAAGTTATTCTATTCTATCTCGCATAAAATAATACATAGATTCTCTCATATCTTATAATATATATACATCTTATACGAGTTTCTAAATTGTCAATCAAATGTCATATTAATGCCTACCTACCAATTAACACCATATAAATTATACAATAATTAATAAGTGAATAACTTTTTCCTTATAAATTGATATTATTACCTCTTTGGTTTGGCTGTTTCTTCTTTTGTATTTATTCAACTCTTGCTTCTCTCGGATTTTTCATTGCTATGAAGTACTTATTATATAGAGAAAAAAAAGAAGAGAGAGATTGATAAATACTGTTAATTGTAGGGTAGGGGGTGTCAATGTTAGGTTCGATCGATTATTTTATAAAATTTAAATAAAGGTATAGTATCATCTTCAACTTCATCATCTCA</genome_strand>
        <mrna_strand>AATGTAGGGATTAGTTATAACTTATGAGGAAATCTATATACTTTCTCCATTTCAAAAAGAATGCCCTAGTTTGACTTGGAACAAAGTTTAAGAAAAGAAAGAAGACTTTTTAATTTTGTGGTTTTAAAGTGTTGCCAAAAAGGAAATAGAGACATTCTTTTTTTAAACGGAGGGAGTATTATTTTATGTATGTATTATTAATATGTAAAGATTAGTTATTCATGCATAAGTTATTCTATTCTATCTCGCATAAAATAATACATAGATTCTCTCATATCTTATAATATATATACATCTTATACGAGTTTCTAAATTGTCAATCAAATGTCATATTAATGCCTACCTACCAATTAACACCATATAAATTATACAATAATTAATAAGTGAATAACTTTTTCCTTATAAATTGATATTATTACCTCTTTGGTTTGGCTGTTTCTTCTTTTGTATTTATTCAACTCTTGCTTCTCTCGGATTTTTCATTGCTATGAAGTACTTATTATATAGAGAAAAAAAAGAAGAGAGAGATTGATAAATACTGTTAATTGTAGGGTAGGGGGTGTCAATGTTANGTTCGATCGATTATTTTATAAAATTTAAATAAAGGTATAGTATCATCTTCAACTTCATCATCTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E325782" ref_strand="+" ref_description="SGN-E325782 [cTOC-12-K13]">
      <seq>gagagttgaataaatacaaaagaagaaacagccaaaccaaagagaatttatcgttcaaggaaaagggatggaacactccattgaaatagatgatcaaattccactgctttctcaaacttatcaagatgagatagaaggagggaggaaagtggatcctttatttgagaatttattcaattcgcgtgttaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtacctacgacggtttcttagacgaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatagaagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagtttattcgagagcgttttgagataggcccaagacaagaagacgaaatcatcaaaagtgacattggttgcatatataatcaaatactccgagatttgatgttactagaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="107845" stop="110584"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108144" g_stop="108187" g_length="44"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="44" r_length="44" r_score="0.977"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108188" i_stop="108788" i_length="601">
            <donor d_prob="0.998" d_score="0.98"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108789" g_stop="108874" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="45" r_stop="130" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108875" i_stop="110083" i_length="1209">
            <donor d_prob="0.993" 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="110084" g_stop="110552" g_length="469"/>
          <reference_exon_boundary r_type="cDNA" r_start="131" r_stop="599" r_length="469" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E325782" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>599</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E325782" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108144" e_stop="108187"/>
          <exon e_start="108789" e_stop="108874"/>
          <exon e_start="110084" e_stop="110552"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAGTTGAATAAATACAAAAGAAGAAACAGCCAAACCAAAGAGGTAATAATATCAATTTATAAGGAAAAAGTTATTCACTTATTAATTATTGTATAATTTATATGGTGTTAATTGGTAGGTAGGCATTAATATGACATTTGATTGACAATTTAGAAACTCGTATAAGATGTATATATATTATAAGATATGAGAGAATCTATGTATTATTTTATGCGAGATAGAATAGAATAACTTATGCATGAATAACTAATCTTTACATATTAATAATACATACATAAAATAATACTCCCTCCGTTTAAAAAAGAATGTCTCTATTTCCTTTTTGGCAACACTTTAAAACCACAAAATTAAAAAGTCTTCTTTCTTTTCTTAAACTTTGTTCCAAGTCAAACTAGGGCATTCTTTTTGAAATGGAGAAAGTATATAGATTTCCTCATAAGTTATAACTAATCCCTACATTTCTCATAACTTTAATATGCTACCAAACAACCCCTTTAAGGTATACAATACACATTATTCTTAATTTTTATTTTTTTTGGGCAATTAAGTGTCTAATACTCCCTCAATTTGCCATTAATTTATTGCTTTGGATAATAACCATAATAGTCATGGTATCTAATTACAAAGAATGTGTTTTTTGTAGAATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAGGTTTTTTTTTCTCTCAACTATACAAATATATAATTTTTTAGATTATTTCCTTTCCTATAATTTTAGGGACAAAGAACATAGATGAGTAAGTTTTTAAAGTCAAATGATATTTTTAGAATTAAAAAATTCTTGTTGGAATTCTGACCCCCAAATTCGCCTTAGGAACAGGTTTATTCTATATGTTCCTTTGAGAAATTACAGCAATTACGTTTTGTGAAGTAAATAAAATAATGACACAATATTCTATCGCGGAAAACCCCAACTCACAAGGGTAAAAATCACGACCTACACCTCTGTAGGATTTAACTCCACTTTATTAAATTTCAAGTCTCAACAAAAGATTACAAAGTTATGTAACCTAAGGAATTATAAACTCTAATTCCTAGAGGAATTATAAACTCTAATTCCTAGCTAAGAAATTATAAACTCTAATTTCTAGCTACCCAAAGACACAAAAACCCCCGGTTTAATATCTTCCAATGTTCTTCAAGTTCTACAACTTGTTGAACAACTCCTACTCACAAAACTCAGATTGTAAACAAGACTCTTGAATACAATCTTACAATTTTTCCTCACAAATTGCTACACTCTCAATAAATCTCAAAACTCTTTCAAACTTCTTGATCGTGTTTTGATCTTCTCTTTATGTAAGTGCGCAATTTTTTTTGATGCAAATAGCTCCCTATTTATAGATCAAAACTTCAACAAATCCTTGAATAATTCAACTTGTATTTGCCTTCTACAAATCTACTTGGACTCCTTTTCTACAGAATTTCCTTAATAAATAAGAATACACAATTTCCTTAAATAGATTTCCTTAAATAGGAATTAGTTTTCCTTCTTTCACTTGGCTTTGAACTCCTTTATAAAAGGAAACTTTTTGTACTTTTTGCTTGTCGAAAAAATAATAATTCCACAGCTTTATAACTTCTAATTCACGTGGTTGACGTTCTCCTTATCCAAGTCGGATTCGTTCTGTAAGGAACACGTTTGTTTCTTTCATCTGTTTTTGTATTTGTCAATTATCAAAATCTTTATCATTCTAACAATTCTTAATTCATCGTGTTTATAAAATGCATAAAGAAAGAAAGAATGTATATATGCACTAATTTTTTTTTATCGAGACATATTCGATCTCCAAAATTGAGACCTTTTACACTTAACAAAAAAAAATTGGTTCTAATAAACATTTTACTCTTTTTGTTACAGATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAATCAAATACTCCGAGATTTGATGTTACTAGAAA</genome_strand>
        <mrna_strand>GAGAGTTGAATAAATACAAAAGAAGAAACAGCCAAACCAAAGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAATCAAATACTCCGAGATTTGATGTTACTAGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E318501" ref_strand="+" ref_description="SGN-E318501 [cTOB-10-E19]">
      <seq>aagaaaccagccaaaccaaagagaatttatcgttcaaggaaaagggatggaacactccattgaaatagatgatcaaattccactgctttctcaaacttatcaagatgagatagaaggagggaggaaagtggatcctttatttgagaatttattcaattcgcgtggtaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtgcctactacggtttcttaaaccaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatataagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagtttattcgacagcgttttgagataggcccaagacaagaagacgaaatcatcaaaagtgacat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="107866" stop="110584"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108166" g_stop="108187" g_length="22"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="23" r_length="23" r_score="0.909"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108188" i_stop="108788" i_length="601">
            <donor d_prob="0.998" d_score="0.00"/>
            <acceptor a_prob="0.982" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="108789" g_stop="108874" g_length="86"/>
          <reference_exon_boundary r_type="cDNA" r_start="24" r_stop="109" r_length="86" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="108875" i_stop="110083" i_length="1209">
            <donor d_prob="0.993" 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="110084" g_stop="110505" g_length="422"/>
          <reference_exon_boundary r_type="cDNA" r_start="110" r_stop="531" r_length="422" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E318501" ref_strand="+">
        <total_alignment_score>0.986</total_alignment_score>
        <cumulative_length_of_scored_exons>530</cumulative_length_of_scored_exons>
        <coverage percentage="0.998" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318501" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108166" e_stop="108187"/>
          <exon e_start="108789" e_stop="108874"/>
          <exon e_start="110084" e_stop="110505"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGAAA-CAGCCAAACCAAAGAGGTAATAATATCAATTTATAAGGAAAAAGTTATTCACTTATTAATTATTGTATAATTTATATGGTGTTAATTGGTAGGTAGGCATTAATATGACATTTGATTGACAATTTAGAAACTCGTATAAGATGTATATATATTATAAGATATGAGAGAATCTATGTATTATTTTATGCGAGATAGAATAGAATAACTTATGCATGAATAACTAATCTTTACATATTAATAATACATACATAAAATAATACTCCCTCCGTTTAAAAAAGAATGTCTCTATTTCCTTTTTGGCAACACTTTAAAACCACAAAATTAAAAAGTCTTCTTTCTTTTCTTAAACTTTGTTCCAAGTCAAACTAGGGCATTCTTTTTGAAATGGAGAAAGTATATAGATTTCCTCATAAGTTATAACTAATCCCTACATTTCTCATAACTTTAATATGCTACCAAACAACCCCTTTAAGGTATACAATACACATTATTCTTAATTTTTATTTTTTTTGGGCAATTAAGTGTCTAATACTCCCTCAATTTGCCATTAATTTATTGCTTTGGATAATAACCATAATAGTCATGGTATCTAATTACAAAGAATGTGTTTTTTGTAGAATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAGGTTTTTTTTTCTCTCAACTATACAAATATATAATTTTTTAGATTATTTCCTTTCCTATAATTTTAGGGACAAAGAACATAGATGAGTAAGTTTTTAAAGTCAAATGATATTTTTAGAATTAAAAAATTCTTGTTGGAATTCTGACCCCCAAATTCGCCTTAGGAACAGGTTTATTCTATATGTTCCTTTGAGAAATTACAGCAATTACGTTTTGTGAAGTAAATAAAATAATGACACAATATTCTATCGCGGAAAACCCCAACTCACAAGGGTAAAAATCACGACCTACACCTCTGTAGGATTTAACTCCACTTTATTAAATTTCAAGTCTCAACAAAAGATTACAAAGTTATGTAACCTAAGGAATTATAAACTCTAATTCCTAGAGGAATTATAAACTCTAATTCCTAGCTAAGAAATTATAAACTCTAATTTCTAGCTACCCAAAGACACAAAAACCCCCGGTTTAATATCTTCCAATGTTCTTCAAGTTCTACAACTTGTTGAACAACTCCTACTCACAAAACTCAGATTGTAAACAAGACTCTTGAATACAATCTTACAATTTTTCCTCACAAATTGCTACACTCTCAATAAATCTCAAAACTCTTTCAAACTTCTTGATCGTGTTTTGATCTTCTCTTTATGTAAGTGCGCAATTTTTTTTGATGCAAATAGCTCCCTATTTATAGATCAAAACTTCAACAAATCCTTGAATAATTCAACTTGTATTTGCCTTCTACAAATCTACTTGGACTCCTTTTCTACAGAATTTCCTTAATAAATAAGAATACACAATTTCCTTAAATAGATTTCCTTAAATAGGAATTAGTTTTCCTTCTTTCACTTGGCTTTGAACTCCTTTATAAAAGGAAACTTTTTGTACTTTTTGCTTGTCGAAAAAATAATAATTCCACAGCTTTATAACTTCTAATTCACGTGGTTGACGTTCTCCTTATCCAAGTCGGATTCGTTCTGTAAGGAACACGTTTGTTTCTTTCATCTGTTTTTGTATTTGTCAATTATCAAAATCTTTATCATTCTAACAATTCTTAATTCATCGTGTTTATAAAATGCATAAAGAAAGAAAGAATGTATATATGCACTAATTTTTTTTTATCGAGACATATTCGATCTCCAAAATTGAGACCTTTTACACTTAACAAAAAAAAATTGGTTCTAATAAACATTTTACTCTTTTTGTTACAGATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACAT</genome_strand>
        <mrna_strand>AAGAAACCAGCCAAACCAAAGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGGTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTGCCTACTACGGTTTCTTAAACCAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATATAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGACAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E324719" ref_strand="+" ref_description="SGN-E324719 [cTOC-8-O12]">
      <seq>agaatttatcgttcaaggaaaagggatggaacactccattgaaatagatgatcaaattccactgctttctcaaacttatcaagatgagatagaaggagggaggaaagtggatcctttatttgagaatttattcaattcgcgtgttaaaccaattagcatattcaaagtaaatgtggggctacgtgaatcaaatccagatgcttatacaccaaagatggtctctattggtccttaccataatggaaaacctcaatttcgtccaatgcaaaagaacaaactattgtacctacgacggtttcttagacgaaaggagaggcttgatgtggatagttgcatcaatgagttggaggaggaagcaaggaattgttacgatgatatagaagacctcaaaattggaagccgcgaattttgcgagatgttattacttgatggttgttttgtggttgagttta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0332P16-Hreys/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04HBa0332P16.1" temp_strand="+" temp_description="C04HBa0332P16.1  CU928471.3 htgs_phase:3 submitted_to_sgn_as:C04HBa0332P16 sequenced_by:sanger upload_account_name:uk">
        <position start="108487" stop="110584"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="108787" g_stop="108874" g_length="88"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="88" r_length="88" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="108875" i_stop="110083" i_length="1209">
            <donor d_prob="0.993" d_score="1.00"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="110084" g_stop="110447" g_length="364"/>
          <reference_exon_boundary r_type="cDNA" r_start="89" r_stop="452" r_length="364" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0332P16.1" gen_strand="+" ref_id="SGN-E324719" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>452</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0332P16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E324719" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="108787" e_stop="108874"/>
          <exon e_start="110084" e_stop="110447"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGAATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAGGTTTTTTTTTCTCTCAACTATACAAATATATAATTTTTTAGATTATTTCCTTTCCTATAATTTTAGGGACAAAGAACATAGATGAGTAAGTTTTTAAAGTCAAATGATATTTTTAGAATTAAAAAATTCTTGTTGGAATTCTGACCCCCAAATTCGCCTTAGGAACAGGTTTATTCTATATGTTCCTTTGAGAAATTACAGCAATTACGTTTTGTGAAGTAAATAAAATAATGACACAATATTCTATCGCGGAAAACCCCAACTCACAAGGGTAAAAATCACGACCTACACCTCTGTAGGATTTAACTCCACTTTATTAAATTTCAAGTCTCAACAAAAGATTACAAAGTTATGTAACCTAAGGAATTATAAACTCTAATTCCTAGAGGAATTATAAACTCTAATTCCTAGCTAAGAAATTATAAACTCTAATTTCTAGCTACCCAAAGACACAAAAACCCCCGGTTTAATATCTTCCAATGTTCTTCAAGTTCTACAACTTGTTGAACAACTCCTACTCACAAAACTCAGATTGTAAACAAGACTCTTGAATACAATCTTACAATTTTTCCTCACAAATTGCTACACTCTCAATAAATCTCAAAACTCTTTCAAACTTCTTGATCGTGTTTTGATCTTCTCTTTATGTAAGTGCGCAATTTTTTTTGATGCAAATAGCTCCCTATTTATAGATCAAAACTTCAACAAATCCTTGAATAATTCAACTTGTATTTGCCTTCTACAAATCTACTTGGACTCCTTTTCTACAGAATTTCCTTAATAAATAAGAATACACAATTTCCTTAAATAGATTTCCTTAAATAGGAATTAGTTTTCCTTCTTTCACTTGGCTTTGAACTCCTTTATAAAAGGAAACTTTTTGTACTTTTTGCTTGTCGAAAAAATAATAATTCCACAGCTTTATAACTTCTAATTCACGTGGTTGACGTTCTCCTTATCCAAGTCGGATTCGTTCTGTAAGGAACACGTTTGTTTCTTTCATCTGTTTTTGTATTTGTCAATTATCAAAATCTTTATCATTCTAACAATTCTTAATTCATCGTGTTTATAAAATGCATAAAGAAAGAAAGAATGTATATATGCACTAATTTTTTTTTATCGAGACATATTCGATCTCCAAAATTGAGACCTTTTACACTTAACAAAAAAAAATTGGTTCTAATAAACATTTTACTCTTTTTGTTACAGATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTA</genome_strand>
        <mrna_strand>AGAATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>368</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="5293" PGL_stop="11427"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="5293" e_stop="6376"/>
            <exon e_start="6477" e_stop="6813"/>
            <exon e_start="8875" e_stop="9037"/>
            <exon e_start="9262" e_stop="9480"/>
            <exon e_start="10443" e_stop="10591"/>
            <exon e_start="10870" e_stop="10999"/>
            <exon e_start="11084" e_stop="11427"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.894" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.374" acc_prob="0.747" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.930" acc_prob="0.814" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="5293" e_stop="6376" e_length="1084"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.894">
            <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6477" e_stop="6813" e_length="337"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="8875" e_stop="9037" e_length="163"/>
          </exon>
          <intron i_serial="3" don_prob="0.374" acc_prob="0.747">
            <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="9262" e_stop="9480" e_length="219"/>
          </exon>
          <intron i_serial="4" don_prob="0.994" acc_prob="0.000">
            <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="10443" e_stop="10591" e_length="149"/>
          </exon>
          <intron i_serial="5" don_prob="0.986" acc_prob="0.997">
            <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="10870" e_stop="10999" e_length="130"/>
          </exon>
          <intron i_serial="6" don_prob="0.930" acc_prob="0.814">
            <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84"/>
          </intron>
          <exon e_serial="7" e_score="1.000">
            <gDNA_exon_boundary e_start="11084" e_stop="11427" e_length="344"/>
          </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="5293" stop="5846"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5301" stop="5840"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5609" stop="6310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5715" stop="6376"/>
              <exon start="6477" stop="6491"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335551" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6321" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="8975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200964" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6560" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9480"/>
              <exon start="10443" stop="10591"/>
              <exon start="10870" stop="10879"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261699" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6560" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9480"/>
              <exon start="10443" stop="10509"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369679" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6560" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E301648" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6611" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9364"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255283" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="9401" stop="9480"/>
              <exon start="10443" stop="10591"/>
              <exon start="10870" stop="10999"/>
              <exon start="11084" stop="11427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369678" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="10903" stop="10999"/>
              <exon start="11084" stop="11416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220147" 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>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG : AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG : ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG : GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG : TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG : ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG : ATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAATATATAACACGC</gDNA_template>
            <first_frame> T  S  N  F  G  S  *  F  *  L  F  V  N  E  F  L  L  C  C  C  F  V  A  V  *  I  *  G  G  V  L  S  A  N  E  F  F  N  F  I  F  C  C  K  K  K  K  S  N  F  G  K  W  M  F  T  *  G  E  K  S  F  K  L  M  N  *  F  C  L  L  K  N  E  R  E  E  I  N  L  E  I  E  F  *  L  R  R  R  F  S  A  Y  E  T  D  F  *  *  R  R  G  I  Y  L  S  N  T  L  I  A  L  K  R  A  E  L  S  Y  L  *  R  W  K  *  S  Y  L  N  P  N  Y  D  D  F  N  L  K  K  Q  I  L  C  S  I  F  D  L  L  I  L  R  K  H  P  L  *  L  F  T  A  K  I  L  *  L  M  L  *  L  K  D  V  A  L  D  E  V  C  I  S  D  D  H  I  V  P  H  P  S  C  E  H  A  N  E  V  S  L  P  D  *  *  P  *  E  T  P  V  *  N  N  W  F  I  K  N  H  R  S  N  L  L  L  N  I  I  I  S  K  R  A  K  K  F  L  L  Y  I  V  Q  *  W  R  R  T  R  G  L  V  G  L  I  A  C  S  L  L  N  M  I  R  T  L  L  K  K  F  Q  V  Y  H  L  K  I  L  G  H  Q  M  I  A  P  E  V  T  I  *  T  P  L  A  V  R  S  S  P  I  T  P  F  W  M  T  R  I  L  Q  L  G  T  T  C  I  A  I  L  L  V  P  F  L  R  Q  M  M  I  L  V  F  L  I  V  I  M  R  I  K  V  V  P  S  S  Y  I  I  T  G  L  R  W  K  T  L  R  M  L  T  G  C  S   : E  V  V  I  Q  H  L  E  L  E  L  V  S  K  M  T  L  V  G  F  R  H  L  V  L  L  K  D  L  E  V  D  *  G  Q  I  W  S  L  P  S  Q  H  P  V  H  L  K  I  S  L  E  C  R  K  L  P  G  Q  R  K  Q  A  I  Q  L  M  I  L  A  L  K  I  N  S  S  V  R  L  A  V  Q  C  H  Q  R  M  N  Q  P  F  *  V  I  Y  L  L  Q  M  V  Q  V  I  Q  I  S  R  *  C  P  *  R  R :   L  I  F  T  K  L  T  L  S  S  R  I  N  L  R  E  K  E  N  M  F  T  W  K  M  G  R  H  S  T  I  L  I  A  F  Q  K  R  E  T  I  L  L  Q  S  L  D  L  R  L  S  H  P  Q  :  V  A  G  I  G  T  N  E  N  M  V  D  K  L  L  Q  R  S  V  I  K  H  E  N  N  R  D  L  E  S  V  S  T  G  I  P  A  E  V  G  S  S  I  V  K  E  S  S  C  T  S  S  G  L  N  E  I  S  E  E  A  D  S  F  H  Q  L  E  H  V  M  E  R  :  L  D  V  R  T  K  L  R  I  R  D  S  L  Y  R  L  A  Q  S  A  E  Q  R  L  R  H  A  N  L  N  N  G  S  G  D  D  S  H  T  S  R  A  F  D  D  D  G  A  Y  R :   C  T  G  Y  L  D  T  E  T  D  T  N  S  I  D  R  S  I  A  H  L  L  F  H  R  P  S  N  S  S  V  M  A  D  S  L  A  L  E  S  P  S  T  :  I  F  E  T  L  L  S  P  P  M  I  D  E  N  L  I  S  A  G  E  N  A  A  E  P  D  K  G  T  K  Y  *  T  G  F  Y  T  N  G  L  C  L  F  Q  F  M  S  H  G  L  A  Y  M  Y  V  H  V  S  I  C  Y  G  Y  L  Y  T  L  L  L  F  S  V  I  R  R  I  *  T  V  *  E  *  G  S  M  S  N  S  L  Q  L  L  V  C  L  C  M  R  I  I  K  N  L  K  *  E  I  I  S  C  N  I  *  H   </first_frame>
            <second_frame>  Q  V  I  L  E  V  D  F  D  C  L  *  M  S  S  F  F  V  V  V  L  L  L  Y  E  Y  K  E  E  C  F  Q  L  M  N  F  L  I  L  F  F  A  V  K  K  K  R  V  T  L  E  N  G  C  L  L  K  V  R  R  V  L  S  L  *  T  D  F  V  C  *  K  M  K  E  K  K  *  I  W  K  L  N  F  S  *  G  E  D  F  Q  L  M  K  R  I  F  S  E  G  E  E  F  I  C  Q  I  H  *  *  P  *  K  E  Q  N  F  R  I  S  N  G  G  N  N  L  T  L  I  Q  T  M  M  I  S  I  *  R  N  K  F  C  V  L  F  L  I  Y  S  F  *  G  S  I  L  S  S  C  L  Q  L  K  F  C  N  *  C  Y  S  L  K  M  *  L  W  M  K  F  A  L  A  M  I  I  *  C  H  I  L  V  V  N  M  P  M  K  F  L  S  Q  T  D  S  R  K  K  P  R  C  E  I  I  G  L  L  R  T  I  G  A  I  F  S  *  I  *  *  S  A  K  G  Q  R  S  S  S  F  I  *  Y  N  D  G  E  G  L  E  G  W  *  A  *  L  R  V  P  F  *  T  *  *  G  L  C  *  R  S  F  K  F  I  I  *  K  Y  *  D  I  K  *  L  L  Q  K  *  Q  Y  R  L  H  *  R  *  G  P  A  Q  *  P  H  S  G  *  Q  E  F  C  S  *  G  Q  L  A  *  L  S  S  W  S  R  F  S  G  R  *  *  S  W  F  S  *  *  *  S  *  G  *  K  *  Y  R  A  L  I  L  *  L  A  *  D  G  K  L  *  G  C  *  Q  D  V  R  :  K  L  *  F  N  I  W  S  W  S  *  Y  R  R  *  P  W  L  V  F  V  I  W  C  Y  *  R  I  W  R  W  I  E  V  R  F  G  V  C  L  L  N  I  Q  C  T  *  K  Y  L  W  N  A  G  S  F  Q  V  K  G  N  R  Q  F  N  *  *  F  W  H  *  R  S  T  L  Q  S  D  W  Q  F  N  A  I  R  G  *  I  S  R  S  E  S  S  I  F  Y  K  W  F  K  *  F  R  F  Q  D  S  A  H  K  E   : D  *  S  S  Q  N  *  L  *  A  P  E  S  I  *  G  K  K  K  T  C  L  R  G  K  W  G  D  I  Q  L  Y  *  *  P  S  R  R  E  K  P  S  Y  C  N  H  W  I  S  G  S  H  I  H  R :   W  L  V  *  E  Q  M  K  I  W  W  T  S  Y  F  N  V  L  *  L  S  M  K  T  T  G  I  L  K  V  S  A  R  E  F  Q  Q  K  *  V  P  L  L  *  R  R  A  L  A  Q  V  L  G  *  M  K  F  L  R  R  Q  I  V  F  I  S  L  N  M  S  W  N  G :   W  M  *  E  Q  S  Y  G  *  G  I  A  C  I  G  W  L  R  V  L  N  K  G  L  D  M  L  I  S  I  M  D  L  V  M  I  V  T  Q  A  E  H  L  M  M  M  E  H  T   : D  A  Q  D  I  W  T  R  R  Q  T  L  T  L  *  I  D  L  L  L  T  Y  S  S  T  G  L  Q  T  H  Q  *  W  L  I  L  W  L  W  S  H  L  P  R :   F  S  R  H  Y  S  A  H  Q  *  L  M  R  T  *  F  L  L  E  K  M  Q  P  N  Q  I  K  A  R  N  I  K  Q  A  S  I  Q  M  G  C  V  Y  F  N  L  C  R  M  D  S  P  T  C  M  C  M  *  V  S  A  M  D  T  Y  I  L  F  C  C  L  V  *  F  E  E  S  K  Q  Y  E  N  E  D  L  C  Q  I  A  Y  S  Y  S  C  V  C  V  *  E  L  S  R  I  S  N  E  K  L  F  H  V  I  Y  N  T  </second_frame>
            <third_frame>   K  *  F  W  K  L  I  L  I  V  C  K  *  V  P  S  L  L  L  F  C  C  C  M  N  I  R  R  S  A  F  S  *  *  I  F  *  F  Y  F  L  L  *  K  K  K  E  *  L  W  K  M  D  V  Y  L  R  *  E  E  F  *  A  Y  E  L  I  L  F  V  E  K  *  K  R  R  N  K  F  G  N  *  I  L  V  K  E  K  I  F  S  L  *  N  G  F  L  V  K  E  R  N  L  F  V  K  Y  I  D  S  L  K  K  S  R  T  F  V  S  L  T  V  E  I  I  L  P  *  S  K  L  *  *  F  Q  F  K  E  T  N  S  V  F  Y  F  *  F  T  H  F  K  E  A  S  S  L  V  V  Y  S  *  N  S  V  T  D  A  I  A  *  R  C  S  F  G  *  S  L  H  *  R  *  S  Y  S  A  T  S  *  L  *  T  C  Q  *  S  F  S  P  R  L  I  A  V  R  N  P  G  V  K  *  L  V  Y  *  E  P  *  E  Q  S  S  L  K  Y  N  N  Q  Q  K  G  K  E  V  P  P  L  Y  S  T  M  M  E  K  D  S  R  A  G  R  L  D  C  V  F  P  S  K  H  D  K  D  S  V  E  E  V  S  S  L  S  S  E  N  T  R  T  S  N  D  C  S  R  S  N  N  I  D  S  I  S  G  E  V  Q  P  N  N  P  I  L  D  D  K  N  S  A  V  R  D  N  L  H  S  Y  P  L  G  P  V  S  Q  A  D  D  D  L  G  F  L  D  S  N  H  E  D  K  S  S  T  E  L  L  Y  Y  N  W  P  E  M  E  N  F  E  D  V  D  R  M  F  G :   S  C  D  S  T  F  G  V  G  A  S  I  E  D  D  L  G  W  F  S  S  S  G  V  I  E  G  S  G  G  G  L  R  S  D  L  E  F  A  F  S  T  S  S  A  L  E  N  I  S  G  M  Q  E  A  S  R  S  K  E  T  G  N  S  I  N  D  S  G  T  K  D  Q  L  F  S  Q  T  G  S  S  M  P  S  E  D  E  S  A  V  L  S  H  L  S  F  T  N  G  S  S  D  S  D  F  K  I  V  P  I  K  K  :  I  N  L  H  K  I  N  S  K  L  Q  N  Q  S  E  G  K  R  K  H  V  Y  V  E  N  G  E  T  F  N  Y  I  D  S  L  P  E  E  R  N  H  P  T  A  I  T  G  S  Q  A  L  T  S  T   : G  G  W  Y  R  N  K  *  K  Y  G  G  Q  A  T  S  T  F  C  N  *  A  *  K  Q  Q  G  S  *  K  C  Q  H  G  N  S  S  R  S  R  F  L  Y  C  K  G  E  L  L  H  K  F  W  V  E  *  N  F  *  G  G  R  *  F  S  S  A  *  T  C  H  G  T   : V  G  C  K  N  K  A  T  D  K  G  *  L  V  S  V  G  S  E  C  *  T  K  A  *  T  C  *  S  Q  *  W  I  W  *  *  *  S  H  K  Q  S  I  *  *  *  W  S  I  Q  :  M  H  R  I  F  G  H  G  D  R  H  *  L  Y  R  S  I  Y  C  S  L  T  L  P  Q  A  F  K  L  I  S  D  G  *  F  F  G  F  G  V  T  F  H   : D  F  R  D  I  T  Q  P  T  N  D  *  *  E  L  D  F  C  W  R  K  C  S  R  T  R  *  R  H  E  I  L  N  R  L  L  Y  K  W  V  V  F  I  S  I  Y  V  A  W  T  R  L  H  V  C  A  C  K  Y  L  L  W  I  L  I  Y  S  F  V  V  *  C  N  S  K  N  L  N  S  M  R  M  R  I  Y  V  K  *  L  T  V  T  R  V  F  V  Y  E  N  Y  Q  E  S  Q  M  R  N  Y  F  M  *  Y  I  T  R </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="5949" stop="6376"/>
                    <exon start="6477" stop="6813"/>
                    <exon start="8875" stop="9037"/>
                    <exon start="9262" stop="9284"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>948</number_coding_nucleotides>
                  <number_encoded_amino_acids>316</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQSSLKYNNQQKGKEVPPLYSTMMEKDSRAGRLDCVFPSKHDKDSVEEVSSLSSENTRTSNDCSRSNNIDSISGEVQPNNPILDDKNSAVRDNLHSYPLGPVSQADDDLGFLDSNHEDKSSTELLYYNWPEMENFEDVDRMFGSCDSTFGVGASIEDDLGWFSSSGVIEGSGGGLRSDLEFAFSTSSALENISGMQEASRSKETGNSINDSGTKDQLFSQTGSSMPSEDESAVLSHLSFTNGSSDSDFKIVPIKKINLHKINSKLQNQSEGKRKHVYVENGETFNYIDSLPEERNHPTAITGSQALTSTGGWYRNK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="5293" e_stop="6376"/>
            <exon e_start="6477" e_stop="6813"/>
            <exon e_start="8875" e_stop="9480"/>
            <exon e_start="10443" e_stop="10591"/>
            <exon e_start="10870" e_stop="10999"/>
            <exon e_start="11084" e_stop="11427"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.894" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.994" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.986" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.930" acc_prob="0.814" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="5293" e_stop="6376" e_length="1084"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.894">
            <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6477" e_stop="6813" e_length="337"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="8875" e_stop="9480" e_length="606"/>
          </exon>
          <intron i_serial="3" don_prob="0.994" acc_prob="0.000">
            <gDNA_intron_boundary i_start="9481" i_stop="10442" i_length="962"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="10443" e_stop="10591" e_length="149"/>
          </exon>
          <intron i_serial="4" don_prob="0.986" acc_prob="0.997">
            <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="10870" e_stop="10999" e_length="130"/>
          </exon>
          <intron i_serial="5" don_prob="0.930" acc_prob="0.814">
            <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84"/>
          </intron>
          <exon e_serial="6" e_score="1.000">
            <gDNA_exon_boundary e_start="11084" e_stop="11427" e_length="344"/>
          </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="5293" stop="5846"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5301" stop="5840"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5609" stop="6310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5715" stop="6376"/>
              <exon start="6477" stop="6491"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335551" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6321" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="8975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200964" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6349" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="9130"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252288" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="9023" stop="9480"/>
              <exon start="10443" stop="10591"/>
              <exon start="10870" stop="10999"/>
              <exon start="11084" stop="11139"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214148" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="9401" stop="9480"/>
              <exon start="10443" stop="10591"/>
              <exon start="10870" stop="10999"/>
              <exon start="11084" stop="11427"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E369678" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="10903" stop="10999"/>
              <exon start="11084" stop="11416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220147" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG : AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG : ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACGGTTTGTCCAACCCTATCCACAATTAAATCTAAAAAAAGCTGTCTCGTGACTCTTTCTGCTAAGGACTCCTGTGCGACAAATCAGATGCAGTTGATGGAAAGCTTACCTGATCCTTCTTTTCAGGTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGG : TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG : ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG : ATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAATATATAACACGC</gDNA_template>
            <first_frame> T  S  N  F  G  S  *  F  *  L  F  V  N  E  F  L  L  C  C  C  F  V  A  V  *  I  *  G  G  V  L  S  A  N  E  F  F  N  F  I  F  C  C  K  K  K  K  S  N  F  G  K  W  M  F  T  *  G  E  K  S  F  K  L  M  N  *  F  C  L  L  K  N  E  R  E  E  I  N  L  E  I  E  F  *  L  R  R  R  F  S  A  Y  E  T  D  F  *  *  R  R  G  I  Y  L  S  N  T  L  I  A  L  K  R  A  E  L  S  Y  L  *  R  W  K  *  S  Y  L  N  P  N  Y  D  D  F  N  L  K  K  Q  I  L  C  S  I  F  D  L  L  I  L  R  K  H  P  L  *  L  F  T  A  K  I  L  *  L  M  L  *  L  K  D  V  A  L  D  E  V  C  I  S  D  D  H  I  V  P  H  P  S  C  E  H  A  N  E  V  S  L  P  D  *  *  P  *  E  T  P  V  *  N  N  W  F  I  K  N  H  R  S  N  L  L  L  N  I  I  I  S  K  R  A  K  K  F  L  L  Y  I  V  Q  *  W  R  R  T  R  G  L  V  G  L  I  A  C  S  L  L  N  M  I  R  T  L  L  K  K  F  Q  V  Y  H  L  K  I  L  G  H  Q  M  I  A  P  E  V  T  I  *  T  P  L  A  V  R  S  S  P  I  T  P  F  W  M  T  R  I  L  Q  L  G  T  T  C  I  A  I  L  L  V  P  F  L  R  Q  M  M  I  L  V  F  L  I  V  I  M  R  I  K  V  V  P  S  S  Y  I  I  T  G  L  R  W  K  T  L  R  M  L  T  G  C  S   : E  V  V  I  Q  H  L  E  L  E  L  V  S  K  M  T  L  V  G  F  R  H  L  V  L  L  K  D  L  E  V  D  *  G  Q  I  W  S  L  P  S  Q  H  P  V  H  L  K  I  S  L  E  C  R  K  L  P  G  Q  R  K  Q  A  I  Q  L  M  I  L  A  L  K  I  N  S  S  V  R  L  A  V  Q  C  H  Q  R  M  N  Q  P  F  *  V  I  Y  L  L  Q  M  V  Q  V  I  Q  I  S  R  *  C  P  *  R  R :   L  I  F  T  K  L  T  L  S  S  R  I  N  L  R  E  K  E  N  M  F  T  W  K  M  G  R  H  S  T  I  L  I  A  F  Q  K  R  E  T  I  L  L  Q  S  L  D  L  R  L  S  H  P  Q  V  F  S  S  T  S  K  L  M  D  L  I  L  G  I  F  R  M  A  F  L  T  Y  L  Q  I  T  V  I  Q  I  R  L  R  F  V  Q  P  Y  P  Q  L  N  L  K  K  A  V  S  *  L  F  L  L  R  T  P  V  R  Q  I  R  C  S  *  W  K  A  Y  L  I  L  L  F  R  W  L  V  *  E  Q  M  K  I  W  W  T  S  Y  F  N  V  L  *  L  S  M  K  T  T  G  I  L  K  V  S  A  R  E  F  Q  Q  K  *  V  P  L  L  *  R  R  A  L  A  Q  V  L  G  *  M  K  F  L  R  R  Q  I  V  F  I  S  L  N  M  S  W  N  G :   W  M  *  E  Q  S  Y  G  *  G  I  A  C  I  G  W  L  R  V  L  N  K  G  L  D  M  L  I  S  I  M  D  L  V  M  I  V  T  Q  A  E  H  L  M  M  M  E  H  T   : D  A  Q  D  I  W  T  R  R  Q  T  L  T  L  *  I  D  L  L  L  T  Y  S  S  T  G  L  Q  T  H  Q  *  W  L  I  L  W  L  W  S  H  L  P  R :   F  S  R  H  Y  S  A  H  Q  *  L  M  R  T  *  F  L  L  E  K  M  Q  P  N  Q  I  K  A  R  N  I  K  Q  A  S  I  Q  M  G  C  V  Y  F  N  L  C  R  M  D  S  P  T  C  M  C  M  *  V  S  A  M  D  T  Y  I  L  F  C  C  L  V  *  F  E  E  S  K  Q  Y  E  N  E  D  L  C  Q  I  A  Y  S  Y  S  C  V  C  V  *  E  L  S  R  I  S  N  E  K  L  F  H  V  I  Y  N  T  </first_frame>
            <second_frame>  Q  V  I  L  E  V  D  F  D  C  L  *  M  S  S  F  F  V  V  V  L  L  L  Y  E  Y  K  E  E  C  F  Q  L  M  N  F  L  I  L  F  F  A  V  K  K  K  R  V  T  L  E  N  G  C  L  L  K  V  R  R  V  L  S  L  *  T  D  F  V  C  *  K  M  K  E  K  K  *  I  W  K  L  N  F  S  *  G  E  D  F  Q  L  M  K  R  I  F  S  E  G  E  E  F  I  C  Q  I  H  *  *  P  *  K  E  Q  N  F  R  I  S  N  G  G  N  N  L  T  L  I  Q  T  M  M  I  S  I  *  R  N  K  F  C  V  L  F  L  I  Y  S  F  *  G  S  I  L  S  S  C  L  Q  L  K  F  C  N  *  C  Y  S  L  K  M  *  L  W  M  K  F  A  L  A  M  I  I  *  C  H  I  L  V  V  N  M  P  M  K  F  L  S  Q  T  D  S  R  K  K  P  R  C  E  I  I  G  L  L  R  T  I  G  A  I  F  S  *  I  *  *  S  A  K  G  Q  R  S  S  S  F  I  *  Y  N  D  G  E  G  L  E  G  W  *  A  *  L  R  V  P  F  *  T  *  *  G  L  C  *  R  S  F  K  F  I  I  *  K  Y  *  D  I  K  *  L  L  Q  K  *  Q  Y  R  L  H  *  R  *  G  P  A  Q  *  P  H  S  G  *  Q  E  F  C  S  *  G  Q  L  A  *  L  S  S  W  S  R  F  S  G  R  *  *  S  W  F  S  *  *  *  S  *  G  *  K  *  Y  R  A  L  I  L  *  L  A  *  D  G  K  L  *  G  C  *  Q  D  V  R  :  K  L  *  F  N  I  W  S  W  S  *  Y  R  R  *  P  W  L  V  F  V  I  W  C  Y  *  R  I  W  R  W  I  E  V  R  F  G  V  C  L  L  N  I  Q  C  T  *  K  Y  L  W  N  A  G  S  F  Q  V  K  G  N  R  Q  F  N  *  *  F  W  H  *  R  S  T  L  Q  S  D  W  Q  F  N  A  I  R  G  *  I  S  R  S  E  S  S  I  F  Y  K  W  F  K  *  F  R  F  Q  D  S  A  H  K  E   : D  *  S  S  Q  N  *  L  *  A  P  E  S  I  *  G  K  K  K  T  C  L  R  G  K  W  G  D  I  Q  L  Y  *  *  P  S  R  R  E  K  P  S  Y  C  N  H  W  I  S  G  S  H  I  H  R  Y  S  A  A  Q  A  S  *  W  I  *  F  W  V  F  S  G  W  L  F  L  L  I  F  R  L  Q  S  F  R  S  D  Y  G  L  S  N  P  I  H  N  *  I  *  K  K  L  S  R  D  S  F  C  *  G  L  L  C  D  K  S  D  A  V  D  G  K  L  T  *  S  F  F  S  G  G  W  Y  R  N  K  *  K  Y  G  G  Q  A  T  S  T  F  C  N  *  A  *  K  Q  Q  G  S  *  K  C  Q  H  G  N  S  S  R  S  R  F  L  Y  C  K  G  E  L  L  H  K  F  W  V  E  *  N  F  *  G  G  R  *  F  S  S  A  *  T  C  H  G  T   : V  G  C  K  N  K  A  T  D  K  G  *  L  V  S  V  G  S  E  C  *  T  K  A  *  T  C  *  S  Q  *  W  I  W  *  *  *  S  H  K  Q  S  I  *  *  *  W  S  I  Q  :  M  H  R  I  F  G  H  G  D  R  H  *  L  Y  R  S  I  Y  C  S  L  T  L  P  Q  A  F  K  L  I  S  D  G  *  F  F  G  F  G  V  T  F  H   : D  F  R  D  I  T  Q  P  T  N  D  *  *  E  L  D  F  C  W  R  K  C  S  R  T  R  *  R  H  E  I  L  N  R  L  L  Y  K  W  V  V  F  I  S  I  Y  V  A  W  T  R  L  H  V  C  A  C  K  Y  L  L  W  I  L  I  Y  S  F  V  V  *  C  N  S  K  N  L  N  S  M  R  M  R  I  Y  V  K  *  L  T  V  T  R  V  F  V  Y  E  N  Y  Q  E  S  Q  M  R  N  Y  F  M  *  Y  I  T  R </second_frame>
            <third_frame>   K  *  F  W  K  L  I  L  I  V  C  K  *  V  P  S  L  L  L  F  C  C  C  M  N  I  R  R  S  A  F  S  *  *  I  F  *  F  Y  F  L  L  *  K  K  K  E  *  L  W  K  M  D  V  Y  L  R  *  E  E  F  *  A  Y  E  L  I  L  F  V  E  K  *  K  R  R  N  K  F  G  N  *  I  L  V  K  E  K  I  F  S  L  *  N  G  F  L  V  K  E  R  N  L  F  V  K  Y  I  D  S  L  K  K  S  R  T  F  V  S  L  T  V  E  I  I  L  P  *  S  K  L  *  *  F  Q  F  K  E  T  N  S  V  F  Y  F  *  F  T  H  F  K  E  A  S  S  L  V  V  Y  S  *  N  S  V  T  D  A  I  A  *  R  C  S  F  G  *  S  L  H  *  R  *  S  Y  S  A  T  S  *  L  *  T  C  Q  *  S  F  S  P  R  L  I  A  V  R  N  P  G  V  K  *  L  V  Y  *  E  P  *  E  Q  S  S  L  K  Y  N  N  Q  Q  K  G  K  E  V  P  P  L  Y  S  T  M  M  E  K  D  S  R  A  G  R  L  D  C  V  F  P  S  K  H  D  K  D  S  V  E  E  V  S  S  L  S  S  E  N  T  R  T  S  N  D  C  S  R  S  N  N  I  D  S  I  S  G  E  V  Q  P  N  N  P  I  L  D  D  K  N  S  A  V  R  D  N  L  H  S  Y  P  L  G  P  V  S  Q  A  D  D  D  L  G  F  L  D  S  N  H  E  D  K  S  S  T  E  L  L  Y  Y  N  W  P  E  M  E  N  F  E  D  V  D  R  M  F  G :   S  C  D  S  T  F  G  V  G  A  S  I  E  D  D  L  G  W  F  S  S  S  G  V  I  E  G  S  G  G  G  L  R  S  D  L  E  F  A  F  S  T  S  S  A  L  E  N  I  S  G  M  Q  E  A  S  R  S  K  E  T  G  N  S  I  N  D  S  G  T  K  D  Q  L  F  S  Q  T  G  S  S  M  P  S  E  D  E  S  A  V  L  S  H  L  S  F  T  N  G  S  S  D  S  D  F  K  I  V  P  I  K  K  :  I  N  L  H  K  I  N  S  K  L  Q  N  Q  S  E  G  K  R  K  H  V  Y  V  E  N  G  E  T  F  N  Y  I  D  S  L  P  E  E  R  N  H  P  T  A  I  T  G  S  Q  A  L  T  S  T  G  I  Q  Q  H  K  Q  V  D  G  S  D  F  G  Y  F  Q  D  G  F  S  Y  L  S  S  D  Y  S  H  S  D  Q  T  T  V  C  P  T  L  S  T  I  K  S  K  K  S  C  L  V  T  L  S  A  K  D  S  C  A  T  N  Q  M  Q  L  M  E  S  L  P  D  P  S  F  Q  V  A  G  I  G  T  N  E  N  M  V  D  K  L  L  Q  R  S  V  I  K  H  E  N  N  R  D  L  E  S  V  S  T  G  I  P  A  E  V  G  S  S  I  V  K  E  S  S  C  T  S  S  G  L  N  E  I  S  E  E  A  D  S  F  H  Q  L  E  H  V  M  E  R  :  L  D  V  R  T  K  L  R  I  R  D  S  L  Y  R  L  A  Q  S  A  E  Q  R  L  R  H  A  N  L  N  N  G  S  G  D  D  S  H  T  S  R  A  F  D  D  D  G  A  Y  R :   C  T  G  Y  L  D  T  E  T  D  T  N  S  I  D  R  S  I  A  H  L  L  F  H  R  P  S  N  S  S  V  M  A  D  S  L  A  L  E  S  P  S  T  :  I  F  E  T  L  L  S  P  P  M  I  D  E  N  L  I  S  A  G  E  N  A  A  E  P  D  K  G  T  K  Y  *  T  G  F  Y  T  N  G  L  C  L  F  Q  F  M  S  H  G  L  A  Y  M  Y  V  H  V  S  I  C  Y  G  Y  L  Y  T  L  L  L  F  S  V  I  R  R  I  *  T  V  *  E  *  G  S  M  S  N  S  L  Q  L  L  V  C  L  C  M  R  I  I  K  N  L  K  *  E  I  I  S  C  N  I  *  H   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="5949" stop="6376"/>
                    <exon start="6477" stop="6813"/>
                    <exon start="8875" stop="9480"/>
                    <exon start="10443" stop="10591"/>
                    <exon start="10870" stop="10999"/>
                    <exon start="11084" stop="11179"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1743</number_coding_nucleotides>
                  <number_encoded_amino_acids>581</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQSSLKYNNQQKGKEVPPLYSTMMEKDSRAGRLDCVFPSKHDKDSVEEVSSLSSENTRTSNDCSRSNNIDSISGEVQPNNPILDDKNSAVRDNLHSYPLGPVSQADDDLGFLDSNHEDKSSTELLYYNWPEMENFEDVDRMFGSCDSTFGVGASIEDDLGWFSSSGVIEGSGGGLRSDLEFAFSTSSALENISGMQEASRSKETGNSINDSGTKDQLFSQTGSSMPSEDESAVLSHLSFTNGSSDSDFKIVPIKKINLHKINSKLQNQSEGKRKHVYVENGETFNYIDSLPEERNHPTAITGSQALTSTGIQQHKQVDGSDFGYFQDGFSYLSSDYSHSDQTTVCPTLSTIKSKKSCLVTLSAKDSCATNQMQLMESLPDPSFQVAGIGTNENMVDKLLQRSVIKHENNRDLESVSTGIPAEVGSSIVKESSCTSSGLNEISEEADSFHQLEHVMERLDVRTKLRIRDSLYRLAQSAEQRLRHANLNNGSGDDSHTSRAFDDDGAYRCTGYLDTETDTNSIDRSIAHLLFHRPSNSSVMADSLALESPSTIFETLLSPPMIDENLISAGENAAEPDKGTKY*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="5293" e_stop="6376"/>
            <exon e_start="6477" e_stop="6813"/>
            <exon e_start="8875" e_stop="9138"/>
            <exon e_start="9262" e_stop="9343"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.894" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.612" acc_prob="0.747" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="5293" e_stop="6376" e_length="1084"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.894">
            <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6477" e_stop="6813" e_length="337"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="8875" e_stop="9138" e_length="264"/>
          </exon>
          <intron i_serial="3" don_prob="0.612" acc_prob="0.747">
            <gDNA_intron_boundary i_start="9139" i_stop="9261" i_length="123"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="9262" e_stop="9343" e_length="82"/>
          </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="5293" stop="5846"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5301" stop="5840"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5609" stop="6310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5715" stop="6376"/>
              <exon start="6477" stop="6491"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335551" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6321" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="8975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200964" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6349" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="9130"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252288" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6731" stop="6813"/>
              <exon start="8875" stop="9138"/>
              <exon start="9262" stop="9333"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295033" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6733" stop="6813"/>
              <exon start="8875" stop="9138"/>
              <exon start="9262" stop="9343"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318635" 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="3" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG : AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG : ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAGGTATTCAGCAGCACAAGCAAGTTGATGGATCTGATTTTGGGTATTTTCAGGATGGCTTTTCTTACTTATCTTCAGATTACAGTCATTCAGATCAGACTACG : GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATC</gDNA_template>
            <first_frame> T  S  N  F  G  S  *  F  *  L  F  V  N  E  F  L  L  C  C  C  F  V  A  V  *  I  *  G  G  V  L  S  A  N  E  F  F  N  F  I  F  C  C  K  K  K  K  S  N  F  G  K  W  M  F  T  *  G  E  K  S  F  K  L  M  N  *  F  C  L  L  K  N  E  R  E  E  I  N  L  E  I  E  F  *  L  R  R  R  F  S  A  Y  E  T  D  F  *  *  R  R  G  I  Y  L  S  N  T  L  I  A  L  K  R  A  E  L  S  Y  L  *  R  W  K  *  S  Y  L  N  P  N  Y  D  D  F  N  L  K  K  Q  I  L  C  S  I  F  D  L  L  I  L  R  K  H  P  L  *  L  F  T  A  K  I  L  *  L  M  L  *  L  K  D  V  A  L  D  E  V  C  I  S  D  D  H  I  V  P  H  P  S  C  E  H  A  N  E  V  S  L  P  D  *  *  P  *  E  T  P  V  *  N  N  W  F  I  K  N  H  R  S  N  L  L  L  N  I  I  I  S  K  R  A  K  K  F  L  L  Y  I  V  Q  *  W  R  R  T  R  G  L  V  G  L  I  A  C  S  L  L  N  M  I  R  T  L  L  K  K  F  Q  V  Y  H  L  K  I  L  G  H  Q  M  I  A  P  E  V  T  I  *  T  P  L  A  V  R  S  S  P  I  T  P  F  W  M  T  R  I  L  Q  L  G  T  T  C  I  A  I  L  L  V  P  F  L  R  Q  M  M  I  L  V  F  L  I  V  I  M  R  I  K  V  V  P  S  S  Y  I  I  T  G  L  R  W  K  T  L  R  M  L  T  G  C  S   : E  V  V  I  Q  H  L  E  L  E  L  V  S  K  M  T  L  V  G  F  R  H  L  V  L  L  K  D  L  E  V  D  *  G  Q  I  W  S  L  P  S  Q  H  P  V  H  L  K  I  S  L  E  C  R  K  L  P  G  Q  R  K  Q  A  I  Q  L  M  I  L  A  L  K  I  N  S  S  V  R  L  A  V  Q  C  H  Q  R  M  N  Q  P  F  *  V  I  Y  L  L  Q  M  V  Q  V  I  Q  I  S  R  *  C  P  *  R  R :   L  I  F  T  K  L  T  L  S  S  R  I  N  L  R  E  K  E  N  M  F  T  W  K  M  G  R  H  S  T  I  L  I  A  F  Q  K  R  E  T  I  L  L  Q  S  L  D  L  R  L  S  H  P  Q  V  F  S  S  T  S  K  L  M  D  L  I  L  G  I  F  R  M  A  F  L  T  Y  L  Q  I  T  V  I  Q  I  R  L  R :   W  L  V  *  E  Q  M  K  I  W  W  T  S  Y  F  N  V  L  *  L  S  M  K  T  T  G  I </first_frame>
            <second_frame>  Q  V  I  L  E  V  D  F  D  C  L  *  M  S  S  F  F  V  V  V  L  L  L  Y  E  Y  K  E  E  C  F  Q  L  M  N  F  L  I  L  F  F  A  V  K  K  K  R  V  T  L  E  N  G  C  L  L  K  V  R  R  V  L  S  L  *  T  D  F  V  C  *  K  M  K  E  K  K  *  I  W  K  L  N  F  S  *  G  E  D  F  Q  L  M  K  R  I  F  S  E  G  E  E  F  I  C  Q  I  H  *  *  P  *  K  E  Q  N  F  R  I  S  N  G  G  N  N  L  T  L  I  Q  T  M  M  I  S  I  *  R  N  K  F  C  V  L  F  L  I  Y  S  F  *  G  S  I  L  S  S  C  L  Q  L  K  F  C  N  *  C  Y  S  L  K  M  *  L  W  M  K  F  A  L  A  M  I  I  *  C  H  I  L  V  V  N  M  P  M  K  F  L  S  Q  T  D  S  R  K  K  P  R  C  E  I  I  G  L  L  R  T  I  G  A  I  F  S  *  I  *  *  S  A  K  G  Q  R  S  S  S  F  I  *  Y  N  D  G  E  G  L  E  G  W  *  A  *  L  R  V  P  F  *  T  *  *  G  L  C  *  R  S  F  K  F  I  I  *  K  Y  *  D  I  K  *  L  L  Q  K  *  Q  Y  R  L  H  *  R  *  G  P  A  Q  *  P  H  S  G  *  Q  E  F  C  S  *  G  Q  L  A  *  L  S  S  W  S  R  F  S  G  R  *  *  S  W  F  S  *  *  *  S  *  G  *  K  *  Y  R  A  L  I  L  *  L  A  *  D  G  K  L  *  G  C  *  Q  D  V  R  :  K  L  *  F  N  I  W  S  W  S  *  Y  R  R  *  P  W  L  V  F  V  I  W  C  Y  *  R  I  W  R  W  I  E  V  R  F  G  V  C  L  L  N  I  Q  C  T  *  K  Y  L  W  N  A  G  S  F  Q  V  K  G  N  R  Q  F  N  *  *  F  W  H  *  R  S  T  L  Q  S  D  W  Q  F  N  A  I  R  G  *  I  S  R  S  E  S  S  I  F  Y  K  W  F  K  *  F  R  F  Q  D  S  A  H  K  E   : D  *  S  S  Q  N  *  L  *  A  P  E  S  I  *  G  K  K  K  T  C  L  R  G  K  W  G  D  I  Q  L  Y  *  *  P  S  R  R  E  K  P  S  Y  C  N  H  W  I  S  G  S  H  I  H  R  Y  S  A  A  Q  A  S  *  W  I  *  F  W  V  F  S  G  W  L  F  L  L  I  F  R  L  Q  S  F  R  S  D  Y   : G  G  W  Y  R  N  K  *  K  Y  G  G  Q  A  T  S  T  F  C  N  *  A  *  K  Q  Q  G   </second_frame>
            <third_frame>   K  *  F  W  K  L  I  L  I  V  C  K  *  V  P  S  L  L  L  F  C  C  C  M  N  I  R  R  S  A  F  S  *  *  I  F  *  F  Y  F  L  L  *  K  K  K  E  *  L  W  K  M  D  V  Y  L  R  *  E  E  F  *  A  Y  E  L  I  L  F  V  E  K  *  K  R  R  N  K  F  G  N  *  I  L  V  K  E  K  I  F  S  L  *  N  G  F  L  V  K  E  R  N  L  F  V  K  Y  I  D  S  L  K  K  S  R  T  F  V  S  L  T  V  E  I  I  L  P  *  S  K  L  *  *  F  Q  F  K  E  T  N  S  V  F  Y  F  *  F  T  H  F  K  E  A  S  S  L  V  V  Y  S  *  N  S  V  T  D  A  I  A  *  R  C  S  F  G  *  S  L  H  *  R  *  S  Y  S  A  T  S  *  L  *  T  C  Q  *  S  F  S  P  R  L  I  A  V  R  N  P  G  V  K  *  L  V  Y  *  E  P  *  E  Q  S  S  L  K  Y  N  N  Q  Q  K  G  K  E  V  P  P  L  Y  S  T  M  M  E  K  D  S  R  A  G  R  L  D  C  V  F  P  S  K  H  D  K  D  S  V  E  E  V  S  S  L  S  S  E  N  T  R  T  S  N  D  C  S  R  S  N  N  I  D  S  I  S  G  E  V  Q  P  N  N  P  I  L  D  D  K  N  S  A  V  R  D  N  L  H  S  Y  P  L  G  P  V  S  Q  A  D  D  D  L  G  F  L  D  S  N  H  E  D  K  S  S  T  E  L  L  Y  Y  N  W  P  E  M  E  N  F  E  D  V  D  R  M  F  G :   S  C  D  S  T  F  G  V  G  A  S  I  E  D  D  L  G  W  F  S  S  S  G  V  I  E  G  S  G  G  G  L  R  S  D  L  E  F  A  F  S  T  S  S  A  L  E  N  I  S  G  M  Q  E  A  S  R  S  K  E  T  G  N  S  I  N  D  S  G  T  K  D  Q  L  F  S  Q  T  G  S  S  M  P  S  E  D  E  S  A  V  L  S  H  L  S  F  T  N  G  S  S  D  S  D  F  K  I  V  P  I  K  K  :  I  N  L  H  K  I  N  S  K  L  Q  N  Q  S  E  G  K  R  K  H  V  Y  V  E  N  G  E  T  F  N  Y  I  D  S  L  P  E  E  R  N  H  P  T  A  I  T  G  S  Q  A  L  T  S  T  G  I  Q  Q  H  K  Q  V  D  G  S  D  F  G  Y  F  Q  D  G  F  S  Y  L  S  S  D  Y  S  H  S  D  Q  T  T  :  V  A  G  I  G  T  N  E  N  M  V  D  K  L  L  Q  R  S  V  I  K  H  E  N  N  R  D  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="5949" stop="6376"/>
                    <exon start="6477" stop="6813"/>
                    <exon start="8875" stop="9138"/>
                    <exon start="9262" stop="9342"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1110</number_coding_nucleotides>
                  <number_encoded_amino_acids>370</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQSSLKYNNQQKGKEVPPLYSTMMEKDSRAGRLDCVFPSKHDKDSVEEVSSLSSENTRTSNDCSRSNNIDSISGEVQPNNPILDDKNSAVRDNLHSYPLGPVSQADDDLGFLDSNHEDKSSTELLYYNWPEMENFEDVDRMFGSCDSTFGVGASIEDDLGWFSSSGVIEGSGGGLRSDLEFAFSTSSALENISGMQEASRSKETGNSINDSGTKDQLFSQTGSSMPSEDESAVLSHLSFTNGSSDSDFKIVPIKKINLHKINSKLQNQSEGKRKHVYVENGETFNYIDSLPEERNHPTAITGSQALTSTGIQQHKQVDGSDFGYFQDGFSYLSSDYSHSDQTTVAGIGTNENMVDKLLQRSVIKHENNRD</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="5293" e_stop="6376"/>
            <exon e_start="6477" e_stop="6813"/>
            <exon e_start="8875" e_stop="9037"/>
            <exon e_start="9262" e_stop="9588"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.991" acc_prob="0.894" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.989" e_score="1.000"/>
          <exon-intron don_prob="0.374" acc_prob="0.747" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="5293" e_stop="6376" e_length="1084"/>
          </exon>
          <intron i_serial="1" don_prob="0.991" acc_prob="0.894">
            <gDNA_intron_boundary i_start="6377" i_stop="6476" i_length="100"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="6477" e_stop="6813" e_length="337"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.989">
            <gDNA_intron_boundary i_start="6814" i_stop="8874" i_length="2061"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="8875" e_stop="9037" e_length="163"/>
          </exon>
          <intron i_serial="3" don_prob="0.374" acc_prob="0.747">
            <gDNA_intron_boundary i_start="9038" i_stop="9261" i_length="224"/>
          </intron>
          <exon e_serial="4" e_score="0.997">
            <gDNA_exon_boundary e_start="9262" e_stop="9588" e_length="327"/>
          </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="5293" stop="5846"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5301" stop="5840"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E317878" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5609" stop="6310"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E214143" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="5715" stop="6376"/>
              <exon start="6477" stop="6491"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E335551" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6321" stop="6376"/>
              <exon start="6477" stop="6813"/>
              <exon start="8875" stop="8975"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E200964" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6560" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E301648" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6611" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9364"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E255283" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="6706" stop="6813"/>
              <exon start="8875" stop="9037"/>
              <exon start="9262" stop="9588"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E273352" 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="4" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ACAAGTAATTTTGGAAGTTGATTTTGATTGTTTGTAAATGAGTTCCTTCTTTGTTGTTGTTTTGTTGCTGTATGAATATAAGGAGGAGTGCTTTCAGCTAATGAATTTTTTAATTTTATTTTTTGCTGTAAAAAAAAAAAGAGTAACTTTGGAAAATGGATGTTTACTTAAGGTGAGAAGAGTTTTAAGCTTATGAACTGATTTTGTTTGTTGAAAAATGAAAGAGAAGAAATAAATTTGGAAATTGAATTTTAGTTAAGGAGAAGATTTTCAGCTTATGAAACGGATTTTTAGTGAAGGAGAGGAATTTATTTGTCAAATACATTGATAGCCTTAAAAAGAGCAGAACTTTCGTATCTCTAACGGTGGAAATAATCTTACCTTAATCCAAACTATGATGATTTCAATTTAAAGAAACAAATTCTGTGTTCTATTTTTGATTTACTCATTTTAAGGAAGCATCCTCTCTAGTTGTTTACAGCTAAAATTCTGTAACTGATGCTATAGCTTAAAGATGTAGCTTTGGATGAAGTTTGCATTAGCGATGATCATATAGTGCCACATCCTAGTTGTGAACATGCCAATGAAGTTTCTCTCCCAGACTGATAGCCGTAAGAAACCCCGGTGTGAAATAATTGGTTTATTAAGAACCATAGGAGCAATCTTCTCTTAAATATAATAATCAGCAAAAGGGCAAAGAAGTTCCTCCTTTATATAGTACAATGATGGAGAAGGACTCGAGGGCTGGTAGGCTTGATTGCGTGTTCCCTTCTAAACATGATAAGGACTCTGTTGAAGAAGTTTCAAGTTTATCATCTGAAAATACTAGGACATCAAATGATTGCTCCAGAAGTAACAATATAGACTCCATTAGCGGTGAGGTCCAGCCCAATAACCCCATTCTGGATGACAAGAATTCTGCAGTTAGGGACAACTTGCATAGCTATCCTCTTGGTCCCGTTTCTCAGGCAGATGATGATCTTGGTTTTCTTGATAGTAATCATGAGGATAAAAGTAGTACCGAGCTCTTATATTATAACTGGCCTGAGATGGAAAACTTTGAGGATGTTGACAGGATGTTCGG : AAGTTGTGATTCAACATTTGGAGTTGGAGCTAGTATCGAAGATGACCTTGGTTGGTTTTCGTCATCTGGTGTTATTGAAGGATCTGGAGGTGGATTGAGGTCAGATTTGGAGTTTGCCTTCTCAACATCCAGTGCACTTGAAAATATCTCTGGAATGCAGGAAGCTTCCAGGTCAAAGGAAACAGGCAATTCAATTAATGATTCTGGCACTAAAGATCAACTCTTCAGTCAGACTGGCAGTTCAATGCCATCAGAGGATGAATCAGCCGTTCTGAGTCATCTATCTTTTACAAATGGTTCAAGTGATTCAGATTTCAAGATAGTGCCCATAAAGAAG : ATTAATCTTCACAAAATTAACTCTAAGCTCCAGAATCAATCTGAGGGAAAAAGAAAACATGTTTACGTGGAAAATGGGGAGACATTCAACTATATTGATAGCCTTCCAGAAGAGAGAAACCATCCTACTGCAATCACTGGATCTCAGGCTCTCACATCCACAG : GTGGCTGGTATAGGAACAAATGAAAATATGGTGGACAAGCTACTTCAACGTTCTGTAATTAAGCATGAAAACAACAGGGATCTTGAAAGTGTCAGCACGGGAATTCCAGCAGAAGTAGGTTCCTCTATTGTAAAGGAGAGCTCTTGCACAAGTTCTGGGTTGAATGAAATTTCTGAGGAGGCAGATAGTTTTCATCAGCTTGAACATGTCATGGAACGGGTATAAAATCTCAATGAAAACTAATATGCATTTTTGATATTGTTTGGTGATGAGTTTCATCAAGGTTTGTTTTAAGTGAGTGATTTGACTAAACAAATTTGGCACACC</gDNA_template>
            <first_frame> T  S  N  F  G  S  *  F  *  L  F  V  N  E  F  L  L  C  C  C  F  V  A  V  *  I  *  G  G  V  L  S  A  N  E  F  F  N  F  I  F  C  C  K  K  K  K  S  N  F  G  K  W  M  F  T  *  G  E  K  S  F  K  L  M  N  *  F  C  L  L  K  N  E  R  E  E  I  N  L  E  I  E  F  *  L  R  R  R  F  S  A  Y  E  T  D  F  *  *  R  R  G  I  Y  L  S  N  T  L  I  A  L  K  R  A  E  L  S  Y  L  *  R  W  K  *  S  Y  L  N  P  N  Y  D  D  F  N  L  K  K  Q  I  L  C  S  I  F  D  L  L  I  L  R  K  H  P  L  *  L  F  T  A  K  I  L  *  L  M  L  *  L  K  D  V  A  L  D  E  V  C  I  S  D  D  H  I  V  P  H  P  S  C  E  H  A  N  E  V  S  L  P  D  *  *  P  *  E  T  P  V  *  N  N  W  F  I  K  N  H  R  S  N  L  L  L  N  I  I  I  S  K  R  A  K  K  F  L  L  Y  I  V  Q  *  W  R  R  T  R  G  L  V  G  L  I  A  C  S  L  L  N  M  I  R  T  L  L  K  K  F  Q  V  Y  H  L  K  I  L  G  H  Q  M  I  A  P  E  V  T  I  *  T  P  L  A  V  R  S  S  P  I  T  P  F  W  M  T  R  I  L  Q  L  G  T  T  C  I  A  I  L  L  V  P  F  L  R  Q  M  M  I  L  V  F  L  I  V  I  M  R  I  K  V  V  P  S  S  Y  I  I  T  G  L  R  W  K  T  L  R  M  L  T  G  C  S   : E  V  V  I  Q  H  L  E  L  E  L  V  S  K  M  T  L  V  G  F  R  H  L  V  L  L  K  D  L  E  V  D  *  G  Q  I  W  S  L  P  S  Q  H  P  V  H  L  K  I  S  L  E  C  R  K  L  P  G  Q  R  K  Q  A  I  Q  L  M  I  L  A  L  K  I  N  S  S  V  R  L  A  V  Q  C  H  Q  R  M  N  Q  P  F  *  V  I  Y  L  L  Q  M  V  Q  V  I  Q  I  S  R  *  C  P  *  R  R :   L  I  F  T  K  L  T  L  S  S  R  I  N  L  R  E  K  E  N  M  F  T  W  K  M  G  R  H  S  T  I  L  I  A  F  Q  K  R  E  T  I  L  L  Q  S  L  D  L  R  L  S  H  P  Q  :  V  A  G  I  G  T  N  E  N  M  V  D  K  L  L  Q  R  S  V  I  K  H  E  N  N  R  D  L  E  S  V  S  T  G  I  P  A  E  V  G  S  S  I  V  K  E  S  S  C  T  S  S  G  L  N  E  I  S  E  E  A  D  S  F  H  Q  L  E  H  V  M  E  R  V  *  N  L  N  E  N  *  Y  A  F  L  I  L  F  G  D  E  F  H  Q  G  L  F  *  V  S  D  L  T  K  Q  I  W  H  T </first_frame>
            <second_frame>  Q  V  I  L  E  V  D  F  D  C  L  *  M  S  S  F  F  V  V  V  L  L  L  Y  E  Y  K  E  E  C  F  Q  L  M  N  F  L  I  L  F  F  A  V  K  K  K  R  V  T  L  E  N  G  C  L  L  K  V  R  R  V  L  S  L  *  T  D  F  V  C  *  K  M  K  E  K  K  *  I  W  K  L  N  F  S  *  G  E  D  F  Q  L  M  K  R  I  F  S  E  G  E  E  F  I  C  Q  I  H  *  *  P  *  K  E  Q  N  F  R  I  S  N  G  G  N  N  L  T  L  I  Q  T  M  M  I  S  I  *  R  N  K  F  C  V  L  F  L  I  Y  S  F  *  G  S  I  L  S  S  C  L  Q  L  K  F  C  N  *  C  Y  S  L  K  M  *  L  W  M  K  F  A  L  A  M  I  I  *  C  H  I  L  V  V  N  M  P  M  K  F  L  S  Q  T  D  S  R  K  K  P  R  C  E  I  I  G  L  L  R  T  I  G  A  I  F  S  *  I  *  *  S  A  K  G  Q  R  S  S  S  F  I  *  Y  N  D  G  E  G  L  E  G  W  *  A  *  L  R  V  P  F  *  T  *  *  G  L  C  *  R  S  F  K  F  I  I  *  K  Y  *  D  I  K  *  L  L  Q  K  *  Q  Y  R  L  H  *  R  *  G  P  A  Q  *  P  H  S  G  *  Q  E  F  C  S  *  G  Q  L  A  *  L  S  S  W  S  R  F  S  G  R  *  *  S  W  F  S  *  *  *  S  *  G  *  K  *  Y  R  A  L  I  L  *  L  A  *  D  G  K  L  *  G  C  *  Q  D  V  R  :  K  L  *  F  N  I  W  S  W  S  *  Y  R  R  *  P  W  L  V  F  V  I  W  C  Y  *  R  I  W  R  W  I  E  V  R  F  G  V  C  L  L  N  I  Q  C  T  *  K  Y  L  W  N  A  G  S  F  Q  V  K  G  N  R  Q  F  N  *  *  F  W  H  *  R  S  T  L  Q  S  D  W  Q  F  N  A  I  R  G  *  I  S  R  S  E  S  S  I  F  Y  K  W  F  K  *  F  R  F  Q  D  S  A  H  K  E   : D  *  S  S  Q  N  *  L  *  A  P  E  S  I  *  G  K  K  K  T  C  L  R  G  K  W  G  D  I  Q  L  Y  *  *  P  S  R  R  E  K  P  S  Y  C  N  H  W  I  S  G  S  H  I  H  R :   W  L  V  *  E  Q  M  K  I  W  W  T  S  Y  F  N  V  L  *  L  S  M  K  T  T  G  I  L  K  V  S  A  R  E  F  Q  Q  K  *  V  P  L  L  *  R  R  A  L  A  Q  V  L  G  *  M  K  F  L  R  R  Q  I  V  F  I  S  L  N  M  S  W  N  G  Y  K  I  S  M  K  T  N  M  H  F  *  Y  C  L  V  M  S  F  I  K  V  C  F  K  *  V  I  *  L  N  K  F  G  T   </second_frame>
            <third_frame>   K  *  F  W  K  L  I  L  I  V  C  K  *  V  P  S  L  L  L  F  C  C  C  M  N  I  R  R  S  A  F  S  *  *  I  F  *  F  Y  F  L  L  *  K  K  K  E  *  L  W  K  M  D  V  Y  L  R  *  E  E  F  *  A  Y  E  L  I  L  F  V  E  K  *  K  R  R  N  K  F  G  N  *  I  L  V  K  E  K  I  F  S  L  *  N  G  F  L  V  K  E  R  N  L  F  V  K  Y  I  D  S  L  K  K  S  R  T  F  V  S  L  T  V  E  I  I  L  P  *  S  K  L  *  *  F  Q  F  K  E  T  N  S  V  F  Y  F  *  F  T  H  F  K  E  A  S  S  L  V  V  Y  S  *  N  S  V  T  D  A  I  A  *  R  C  S  F  G  *  S  L  H  *  R  *  S  Y  S  A  T  S  *  L  *  T  C  Q  *  S  F  S  P  R  L  I  A  V  R  N  P  G  V  K  *  L  V  Y  *  E  P  *  E  Q  S  S  L  K  Y  N  N  Q  Q  K  G  K  E  V  P  P  L  Y  S  T  M  M  E  K  D  S  R  A  G  R  L  D  C  V  F  P  S  K  H  D  K  D  S  V  E  E  V  S  S  L  S  S  E  N  T  R  T  S  N  D  C  S  R  S  N  N  I  D  S  I  S  G  E  V  Q  P  N  N  P  I  L  D  D  K  N  S  A  V  R  D  N  L  H  S  Y  P  L  G  P  V  S  Q  A  D  D  D  L  G  F  L  D  S  N  H  E  D  K  S  S  T  E  L  L  Y  Y  N  W  P  E  M  E  N  F  E  D  V  D  R  M  F  G :   S  C  D  S  T  F  G  V  G  A  S  I  E  D  D  L  G  W  F  S  S  S  G  V  I  E  G  S  G  G  G  L  R  S  D  L  E  F  A  F  S  T  S  S  A  L  E  N  I  S  G  M  Q  E  A  S  R  S  K  E  T  G  N  S  I  N  D  S  G  T  K  D  Q  L  F  S  Q  T  G  S  S  M  P  S  E  D  E  S  A  V  L  S  H  L  S  F  T  N  G  S  S  D  S  D  F  K  I  V  P  I  K  K  :  I  N  L  H  K  I  N  S  K  L  Q  N  Q  S  E  G  K  R  K  H  V  Y  V  E  N  G  E  T  F  N  Y  I  D  S  L  P  E  E  R  N  H  P  T  A  I  T  G  S  Q  A  L  T  S  T   : G  G  W  Y  R  N  K  *  K  Y  G  G  Q  A  T  S  T  F  C  N  *  A  *  K  Q  Q  G  S  *  K  C  Q  H  G  N  S  S  R  S  R  F  L  Y  C  K  G  E  L  L  H  K  F  W  V  E  *  N  F  *  G  G  R  *  F  S  S  A  *  T  C  H  G  T  G  I  K  S  Q  *  K  L  I  C  I  F  D  I  V  W  *  *  V  S  S  R  F  V  L  S  E  *  F  D  *  T  N  L  A  H  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="5949" stop="6376"/>
                    <exon start="6477" stop="6813"/>
                    <exon start="8875" stop="9037"/>
                    <exon start="9262" stop="9284"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>948</number_coding_nucleotides>
                  <number_encoded_amino_acids>316</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EQSSLKYNNQQKGKEVPPLYSTMMEKDSRAGRLDCVFPSKHDKDSVEEVSSLSSENTRTSNDCSRSNNIDSISGEVQPNNPILDDKNSAVRDNLHSYPLGPVSQADDDLGFLDSNHEDKSSTELLYYNWPEMENFEDVDRMFGSCDSTFGVGASIEDDLGWFSSSGVIEGSGGGLRSDLEFAFSTSSALENISGMQEASRSKETGNSINDSGTKDQLFSQTGSSMPSEDESAVLSHLSFTNGSSDSDFKIVPIKKINLHKINSKLQNQSEGKRKHVYVENGETFNYIDSLPEERNHPTAITGSQALTSTGGWYRNK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="5">
          <exon_coordinates>
            <exon e_start="10308" e_stop="10344"/>
            <exon e_start="10443" e_stop="10591"/>
            <exon e_start="10870" e_stop="10999"/>
            <exon e_start="11084" e_stop="11416"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.905" acc_prob="0.000" e_score="0.973"/>
          <exon-intron don_prob="0.986" acc_prob="0.997" e_score="1.000"/>
          <exon-intron don_prob="0.930" acc_prob="0.814" 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="0.973">
            <gDNA_exon_boundary e_start="10308" e_stop="10344" e_length="37"/>
          </exon>
          <intron i_serial="1" don_prob="0.905" acc_prob="0.000">
            <gDNA_intron_boundary i_start="10345" i_stop="10442" i_length="98"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="10443" e_stop="10591" e_length="149"/>
          </exon>
          <intron i_serial="2" don_prob="0.986" acc_prob="0.997">
            <gDNA_intron_boundary i_start="10592" i_stop="10869" i_length="278"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="10870" e_stop="10999" e_length="130"/>
          </exon>
          <intron i_serial="3" don_prob="0.930" acc_prob="0.814">
            <gDNA_intron_boundary i_start="11000" i_stop="11083" i_length="84"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="11084" e_stop="11416" e_length="333"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="10308" stop="10344"/>
              <exon start="10443" stop="10591"/>
              <exon start="10870" stop="10999"/>
              <exon start="11084" stop="11202"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E236057" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="10903" stop="10999"/>
              <exon start="11084" stop="11416"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E220147" 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="5" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTAAACTTGGGCTAGGAAGGGGCAGTTAGCAGATTTG : TTGGATGTAAGAACAAAGCTACGGATAAGGGATAGCTTGTATCGGTTGGCTCAGAGTGCTGAACAAAGGCTTAGACATGCTAATCTCAATAATGGATCTGGTGATGATAGTCACACAAGCAGAGCATTTGATGATGATGGAGCATACAG : ATGCACAGGATATTTGGACACGGAGACAGACACTAACTCTATAGATCGATCTATTGCTCACTTACTCTTCCACAGGCCTTCAAACTCATCAGTGATGGCTGATTCTTTGGCTTTGGAGTCACCTTCCACG : ATTTTCGAGACATTACTCAGCCCACCAATGATTGATGAGAACTTGATTTCTGCTGGAGAAAATGCAGCCGAACCAGATAAAGGCACGAAATATTAAACAGGCTTCTATACAAATGGGTTGTGTTTATTTCAATTTATGTCGCATGGACTCGCCTACATGTATGTGCATGTAAGTATCTGCTATGGATACTTATATACTCTTTTGTTGTTTAGTGTAATTCGAAGAATCTAAACAGTATGAGAATGAGGATCTATGTCAAATAGCTTACAGTTACTCGTGTGTTTGTGTATGAGAATTATCAAGAATCTCAAATGAGAAATTATTTCATGTAAT</gDNA_template>
            <first_frame> V  N  L  G  *  E  G  A  V  S  R  F   : V  G  C  K  N  K  A  T  D  K  G  *  L  V  S  V  G  S  E  C  *  T  K  A  *  T  C  *  S  Q  *  W  I  W  *  *  *  S  H  K  Q  S  I  *  *  *  W  S  I  Q  :  M  H  R  I  F  G  H  G  D  R  H  *  L  Y  R  S  I  Y  C  S  L  T  L  P  Q  A  F  K  L  I  S  D  G  *  F  F  G  F  G  V  T  F  H   : D  F  R  D  I  T  Q  P  T  N  D  *  *  E  L  D  F  C  W  R  K  C  S  R  T  R  *  R  H  E  I  L  N  R  L  L  Y  K  W  V  V  F  I  S  I  Y  V  A  W  T  R  L  H  V  C  A  C  K  Y  L  L  W  I  L  I  Y  S  F  V  V  *  C  N  S  K  N  L  N  S  M  R  M  R  I  Y  V  K  *  L  T  V  T  R  V  F  V  Y  E  N  Y  Q  E  S  Q  M  R  N  Y  F  M  *  </first_frame>
            <second_frame>  *  T  W  A  R  K  G  Q  L  A  D  L  :  L  D  V  R  T  K  L  R  I  R  D  S  L  Y  R  L  A  Q  S  A  E  Q  R  L  R  H  A  N  L  N  N  G  S  G  D  D  S  H  T  S  R  A  F  D  D  D  G  A  Y  R :   C  T  G  Y  L  D  T  E  T  D  T  N  S  I  D  R  S  I  A  H  L  L  F  H  R  P  S  N  S  S  V  M  A  D  S  L  A  L  E  S  P  S  T  :  I  F  E  T  L  L  S  P  P  M  I  D  E  N  L  I  S  A  G  E  N  A  A  E  P  D  K  G  T  K  Y  *  T  G  F  Y  T  N  G  L  C  L  F  Q  F  M  S  H  G  L  A  Y  M  Y  V  H  V  S  I  C  Y  G  Y  L  Y  T  L  L  L  F  S  V  I  R  R  I  *  T  V  *  E  *  G  S  M  S  N  S  L  Q  L  L  V  C  L  C  M  R  I  I  K  N  L  K  *  E  I  I  S  C  N </second_frame>
            <third_frame>   K  L  G  L  G  R  G  S  *  Q  I  C :   W  M  *  E  Q  S  Y  G  *  G  I  A  C  I  G  W  L  R  V  L  N  K  G  L  D  M  L  I  S  I  M  D  L  V  M  I  V  T  Q  A  E  H  L  M  M  M  E  H  T   : D  A  Q  D  I  W  T  R  R  Q  T  L  T  L  *  I  D  L  L  L  T  Y  S  S  T  G  L  Q  T  H  Q  *  W  L  I  L  W  L  W  S  H  L  P  R :   F  S  R  H  Y  S  A  H  Q  *  L  M  R  T  *  F  L  L  E  K  M  Q  P  N  Q  I  K  A  R  N  I  K  Q  A  S  I  Q  M  G  C  V  Y  F  N  L  C  R  M  D  S  P  T  C  M  C  M  *  V  S  A  M  D  T  Y  I  L  F  C  C  L  V  *  F  E  E  S  K  Q  Y  E  N  E  D  L  C  Q  I  A  Y  S  Y  S  C  V  C  V  *  E  L  S  R  I  S  N  E  K  L  F  H  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="5" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="10312" stop="10344"/>
                    <exon start="10443" stop="10591"/>
                    <exon start="10870" stop="10999"/>
                    <exon start="11084" stop="11179"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>405</number_coding_nucleotides>
                  <number_encoded_amino_acids>135</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TWARKGQLADLLDVRTKLRIRDSLYRLAQSAEQRLRHANLNNGSGDDSHTSRAFDDDGAYRCTGYLDTETDTNSIDRSIAHLLFHRPSNSSVMADSLALESPSTIFETLLSPPMIDENLISAGENAAEPDKGTKY*</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="25318" PGL_stop="21551"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="25318" e_stop="25159"/>
            <exon e_start="25042" e_stop="24929"/>
            <exon e_start="24030" e_stop="23729"/>
            <exon e_start="23145" e_stop="22901"/>
            <exon e_start="22811" e_stop="22126"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.974" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.982" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="25318" e_stop="25159" e_length="160"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.974">
            <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="25042" e_stop="24929" e_length="114"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.996">
            <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="24030" e_stop="23729" e_length="302"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.988">
            <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="23145" e_stop="22901" e_length="245"/>
          </exon>
          <intron i_serial="4" don_prob="0.995" acc_prob="0.982">
            <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="22811" e_stop="22126" e_length="686"/>
          </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="25318" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E700332" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344531" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344574" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
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              <exon start="24030" stop="23729"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327891" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326927" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25316" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746650" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25315" stop="25159"/>
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              <exon start="24030" stop="23791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271217" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25314" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23796"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E310248" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25314" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E312367" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25311" stop="25159"/>
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              <exon start="24030" stop="23730"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318026" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25309" stop="25159"/>
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              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22982"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E554077" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25305" stop="25159"/>
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              <exon start="22811" stop="22748"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E739277" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25304" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23966"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E207281" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25298" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22776"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E553908" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25284" stop="25159"/>
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              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22937"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E723686" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25269" stop="25159"/>
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              <exon start="24030" stop="23787"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202767" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25269" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23820"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281417" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25269" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E281416" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25267" stop="25159"/>
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              <exon start="24030" stop="23729"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709829" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22951"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316126" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316027" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316055" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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              <exon start="24030" stop="23729"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E729188" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316286" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25264" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E258146" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25263" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E272613" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
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            <referenceDNA id="SGN-E272658" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
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            <referenceDNA id="SGN-E268788" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25259" stop="25159"/>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270654" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
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            <referenceDNA id="SGN-E391176" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
            <gDNA_exon_coordinates>
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            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E699259" strand="+"/>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
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          <PGS_line>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
            <gDNA_exon_coordinates>
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          <PGS_line>
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          <PGS_line>
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          <PGS_line>
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          <PGS_line>
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            <gDNA_exon_coordinates>
              <exon start="22548" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222100" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226809" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22543" stop="22185"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22542" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223168" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22539" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226672" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22536" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E397305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297123" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297257" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22523" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279862" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22517" stop="22190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224750" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293080" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22274"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22473" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278384" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22448" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221401" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22446" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238688" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22438" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230176" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22342" stop="22128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541538" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22341" stop="22126"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295029" 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>ATCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG : GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT : ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG : AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG : GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGTAT</gDNA_template>
            <first_frame> I  Y  L  S  S  I  I  S  S  I  F  F  P  P  F  I  H  S  *  T  S  T  I  F  L  H  Q  H  I  N  C  T  A  V  A  V  I  L  L  K  N  N  G  C  S  L  S  S  Q  H  F  S  *   : G  *  Q  Q  R  I  L  *  I  L  W  F  E  N  L  I  S  C  S  I  W  E  E  N  *  *  *  F  V  L  C  C  W  L  T  N  L  C   : Y  W  R  K  E  E  Q  E  D  S  N  *  G  K  V  E  S  G  Y  Q  W  I  W  K  N  W  K  E  L  L  E  V  L  A  W  *  K  R  L  T  S  *  C  H  C  H  Q  *  H  W  W  C  Q  A  S  L  S  P  S  Q  I  *  L  H  P  W  H  L  *  C  *  R  Q  A  G  W  H  *  W  H  L  C  R  W  K  S  H  P  S  R  L  Q  P  *  P  C  E  P  P  M  G  :  R  T  W  S  *  L  S  H  R  R  Y  R  S  F  C  R  Q  R  R  C  R  *  T  H  P  G  R  S  Q  E  G  A  H  H  R  P  R  K  R  *  H  P  Y  L  C  C  W  C  Q  C  *  T  L  Q  P  *  *  T  Y  H  Q  Q  C  L  L  Y  H  Q  L  P  C  S  F  R  Q  G  S  *  P  E  I  W :   N  Y  Q  G  N  N  D  N  Y  S  L  L  H  R  *  P  K  A  S  *  C  K  P  Q  G  S  *  T  C  T  S  C  S  T  E  H  S  S  N  L  N  W  C  C  *  G  C  G  S  C  S  P  K  P  Q  G  E  T  Q  R  H  C  P  P  C  S  H  P  *  R  L  G  C  G  P  C  C  A  S  H  Q  E  D  I  C  *  G  S  E  C  C  I  Q  R  G  R  *  *  G  T  Q  W  H  S  I  C  L  *  *  T  T  R  V  S  *  L  P  V  Q  *  R  V  I  N  C  *  F  F  T  H  H  G  H  G  R  *  H  G  *  G  Y  C  L  V  *  Q  *  M  G  L  L  T  E  G  C  *  S  C  *  H  C  C  K  P  V  E  M  K  H  E  N  K  I  K  Q  Y  Y  *  I  V  A  *  F  I  F  F  *  P  C  L  *  I  L  I  P  F  *  K  L  *  *  E  L  *  Q  F  S  T  L  *  N  L  N  S  I  K  V  P  F  L  V  F  I  Q  S  A  S  V  </first_frame>
            <second_frame>  S  I  Y  H  P  *  S  H  P  F  S  S  L  H  S  F  I  H  K  L  P  Q  F  F  F  I  N  T  *  T  V  L  L  L  L  *  F  S  *  R  T  M  A  A  L  S  V  A  N  T  S  L  K  :  V  N  N  K  G  F  S  E  F  S  G  L  R  T  S  S  A  V  P  F  G  R  K  T  N  D  D  L  F  S  V  A  G  L  Q  T  S  A  :  I  G  G  R  K  N  K  R  I  V  T  E  A  K  L  K  V  A  I  N  G  F  G  R  I  G  R  N  F  L  R  C  W  H  G  R  K  D  S  P  L  D  V  I  A  I  N  D  T  G  G  V  K  Q  A  S  H  L  L  K  Y  D  S  T  L  G  I  F  D  A  D  V  K  P  V  G  T  D  G  I  S  V  D  G  K  V  I  Q  V  V  S  N  R  D  P  V  N  L  P  W  G :   E  L  G  V  D  L  V  I  E  G  T  G  V  F  V  D  R  E  G  A  G  K  H  I  Q  A  G  A  K  K  V  L  I  T  A  P  G  K  G  D  I  P  T  Y  V  V  G  V  N  A  E  L  Y  S  H  D  E  P  I  I  S  N  A  S  C  T  T  N  C  L  A  P  F  V  K  V  L  D  Q  K  F   : G  I  I  K  G  T  M  T  T  T  H  S  Y  T  G  D  Q  R  L  L  D  A  S  H  R  D  L  R  R  A  R  A  A  A  L  N  I  V  P  T  S  T  G  A  A  K  A  V  A  L  V  L  P  S  L  K  G  K  L  N  G  I  A  L  R  V  P  T  P  N  V  S  V  V  D  L  V  V  Q  V  T  K  K  T  F  A  E  E  V  N  A  A  F  R  E  A  A  D  K  E  L  N  G  I  L  S  V  C  D  E  P  L  V  S  V  D  F  R  C  S  D  V  S  S  T  V  D  S  S  L  T  M  V  M  G  D  D  M  V  K  V  I  A  W  Y  D  N  E  W  G  Y  S  Q  R  V  V  D  L  A  D  I  V  A  N  Q  W  K  *  N  M  K  I  K  *  S  S  T  T  K  *  W  L  N  L  Y  F  F  N  L  A  C  R  F  L  F  L  F  E  N  C  N  E  N  Y  N  N  F  P  P  C  E  I  S  I  Q  *  K  S  P  F  L  S  L  Y  S  P  L  L  Y </second_frame>
            <third_frame>   L  S  I  I  H  N  L  I  H  F  L  P  S  I  H  S  F  I  N  F  H  N  F  S  S  S  T  H  K  L  Y  C  C  C  C  N  S  L  K  E  Q  W  L  L  S  Q  *  P  T  L  L  L  R :   L  T  T  K  D  S  L  N  S  L  V  *  E  P  H  Q  L  F  H  L  G  G  K  L  M  M  I  C  S  L  L  L  A  Y  K  P  L  L :   L  E  E  G  R  T  R  G  *  *  L  R  Q  S  *  K  W  L  S  M  D  L  E  E  L  E  G  T  S  *  G  A  G  M  V  E  K  T  H  L  L  M  S  L  P  S  M  T  L  V  V  S  S  K  P  L  T  F  S  N  M  T  P  P  L  A  S  L  M  L  T  S  S  R  L  A  L  M  A  S  L  S  M  E  K  S  S  K  S  S  P  T  V  T  L  *  T  S  H  G   : E  N  L  E  L  T  *  S  *  K  V  P  E  F  L  *  T  E  K  V  P  V  N  T  S  R  P  E  P  R  R  C  S  S  P  P  P  E  K  V  T  S  L  L  M  L  L  V  S  M  L  N  F  T  A  M  M  N  L  S  S  A  M  P  L  V  P  P  T  A  L  L  L  S  S  R  F  L  T  R  N  L  :  E  L  S  R  E  Q  *  Q  L  L  T  L  T  P  V  T  K  G  F  L  M  Q  A  T  G  I  L  D  V  H  E  L  Q  H  *  T  *  F  Q  P  Q  L  V  L  L  R  L  W  L  L  F  S  Q  A  S  R  G  N  S  T  A  L  P  S  V  F  P  P  L  T  S  R  L  W  T  L  L  C  K  S  P  R  R  H  L  L  R  K  *  M  L  H  S  E  R  P  L  I  R  N  S  M  A  F  Y  L  S  V  M  N  H  S  C  Q  L  T  S  G  A  V  T  C  H  Q  L  L  I  L  H  S  P  W  S  W  E  M  T  W  L  R  L  L  L  G  M  T  M  N  G  V  T  H  R  G  L  L  I  L  L  T  L  L  Q  T  S  G  N  E  T  *  K  *  N  K  A  V  L  L  N  S  G  L  I  Y  I  F  L  T  L  L  V  D  S  Y  S  F  L  K  I  V  M  R  T  I  T  I  F  H  L  V  K  S  Q  F  N  K  S  P  L  S  C  L  Y  T  V  R  F  C   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="25200" stop="25159"/>
                    <exon start="25042" stop="24929"/>
                    <exon start="24030" stop="23729"/>
                    <exon start="23145" stop="22901"/>
                    <exon start="22811" stop="22309"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1203</number_coding_nucleotides>
                  <number_encoded_amino_acids>401</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RTMAALSVANTSLKVNNKGFSEFSGLRTSSAVPFGRKTNDDLFSVAGLQTSAIGGRKNKRIVTEAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVIAINDTGGVKQASHLLKYDSTLGIFDADVKPVGTDGISVDGKVIQVVSNRDPVNLPWGELGVDLVIEGTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNAELYSHDEPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVALVLPSLKGKLNGIALRVPTPNVSVVDLVVQVTKKTFAEEVNAAFREAADKELNGILSVCDEPLVSVDFRCSDVSSTVDSSLTMVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANQWK*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="25318" e_stop="25159"/>
            <exon e_start="25042" e_stop="24929"/>
            <exon e_start="24030" e_stop="23729"/>
            <exon e_start="23145" e_stop="22901"/>
            <exon e_start="22811" e_stop="22140"/>
            <exon e_start="21986" e_stop="21933"/>
            <exon e_start="21602" e_stop="21551"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.974" e_score="1.000"/>
          <exon-intron don_prob="0.989" acc_prob="0.996" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.988" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.982" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="1.000"/>
          <exon-intron don_prob="0.000" acc_prob="0.557" e_score="0.481"/>
          <exon-only e_score="0.462"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="25318" e_stop="25159" e_length="160"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.974">
            <gDNA_intron_boundary i_start="25158" i_stop="25043" i_length="116"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="25042" e_stop="24929" e_length="114"/>
          </exon>
          <intron i_serial="2" don_prob="0.989" acc_prob="0.996">
            <gDNA_intron_boundary i_start="24928" i_stop="24031" i_length="898"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="24030" e_stop="23729" e_length="302"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.988">
            <gDNA_intron_boundary i_start="23728" i_stop="23146" i_length="583"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="23145" e_stop="22901" e_length="245"/>
          </exon>
          <intron i_serial="4" don_prob="0.995" acc_prob="0.982">
            <gDNA_intron_boundary i_start="22900" i_stop="22812" i_length="89"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="22811" e_stop="22140" e_length="672"/>
          </exon>
          <intron i_serial="5" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="22139" i_stop="21987" i_length="153"/>
          </intron>
          <exon e_serial="6" e_score="0.481">
            <gDNA_exon_boundary e_start="21986" e_stop="21933" e_length="54"/>
          </exon>
          <intron i_serial="6" don_prob="0.000" acc_prob="0.557">
            <gDNA_intron_boundary i_start="21932" i_stop="21603" i_length="330"/>
          </intron>
          <exon e_serial="7" e_score="0.462">
            <gDNA_exon_boundary e_start="21602" e_stop="21551" e_length="52"/>
          </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="25318" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22757"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E700332" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="23100"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344531" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="23100"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E344574" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="23101"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327891" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25317" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326927" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25316" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E746650" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="25315" stop="25159"/>
              <exon start="25042" stop="24929"/>
              <exon start="24030" stop="23791"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E271217" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
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            <referenceDNA id="SGN-E298506" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23902" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22359"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E736987" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23880" stop="23729"/>
              <exon start="23145" stop="22921"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252154" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23874" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22629"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E257112" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23870" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22440"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E212635" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23870" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22658"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E253027" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23844" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22699"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E251059" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23836" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22681"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E288029" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23829" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22377"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E262305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23829" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22700"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285652" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23805" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22605"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284822" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23796" stop="23729"/>
              <exon start="23145" stop="22913"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E296402" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23786" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22599"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E290501" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23781" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22766"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298766" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23758" stop="23729"/>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22536"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297943" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E727650" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23145" stop="22901"/>
              <exon start="22811" stop="22193"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733608" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23139" stop="22901"/>
              <exon start="22811" stop="22495"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297837" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23139" stop="22901"/>
              <exon start="22811" stop="22500"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295694" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23134" stop="22901"/>
              <exon start="22811" stop="22534"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284662" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23113" stop="22901"/>
              <exon start="22811" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E711240" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23109" stop="22901"/>
              <exon start="22811" stop="22465"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E252606" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23107" stop="22901"/>
              <exon start="22811" stop="22629"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E256798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23102" stop="22901"/>
              <exon start="22811" stop="22598"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E263957" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23097" stop="22901"/>
              <exon start="22811" stop="22218"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E716268" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23084" stop="22901"/>
              <exon start="22811" stop="22169"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732426" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23082" stop="22901"/>
              <exon start="22811" stop="22534"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E294825" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23077" stop="22901"/>
              <exon start="22811" stop="22442"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E270885" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23063" stop="22901"/>
              <exon start="22811" stop="22173"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E728484" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23024" stop="22901"/>
              <exon start="22811" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735148" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23023" stop="22901"/>
              <exon start="22811" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548239" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23003" stop="22901"/>
              <exon start="22811" stop="22360"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285511" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="23003" stop="22901"/>
              <exon start="22811" stop="22400"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E285515" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22968" stop="22901"/>
              <exon start="22811" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391359" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22968" stop="22901"/>
              <exon start="22811" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E693350" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22964" stop="22901"/>
              <exon start="22811" stop="22181"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340621" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22958" stop="22901"/>
              <exon start="22811" stop="22146"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732515" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22954" stop="22901"/>
              <exon start="22811" stop="22163"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733926" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22954" stop="22901"/>
              <exon start="22811" stop="22496"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204350" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22947" stop="22901"/>
              <exon start="22811" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733828" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22914" stop="22901"/>
              <exon start="22811" stop="22251"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297626" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22906" stop="22901"/>
              <exon start="22811" stop="22163"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E371517" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22792" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348483" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22792" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348618" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22789" stop="22372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318755" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22758" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735088" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22724" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286945" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22721" stop="22163"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735231" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22716" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372443" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22714" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740157" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22692" stop="22244"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289875" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22669" stop="22239"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287400" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22645" stop="22180"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282878" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22634" stop="22140"/>
              <exon start="21986" stop="21933"/>
              <exon start="21602" stop="21551"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E732695" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22612" stop="22185"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223046" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22600" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239036" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22593" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221082" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22589" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217863" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22587" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E265239" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22583" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298696" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22583" stop="22172"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284217" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22573" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278761" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22567" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224530" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22548" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222100" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226809" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22543" stop="22185"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22542" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223168" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22539" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226672" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22536" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E397305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297123" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297257" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22523" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279862" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22517" stop="22190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224750" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293080" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22274"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22473" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278384" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22448" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221401" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22446" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238688" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22438" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230176" 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="2" gDNA_strand="-"/>
          <translation>
            <gDNA_template>ATCTATCTATCATCCATAATCTCATCCATTTTCTTCCCTCCATTCATTCATTCATAAACTTCCACAATTTTTCTTCATCAACACATAAACTGTACTGCTGTTGCTGTAATTCTCTTAAAGAACAATGGCTGCTCTCTCAGTAGCCAACACTTCTCTTAAG : GTTAACAACAAAGGATTCTCTGAATTCTCTGGTTTGAGAACCTCATCAGCTGTTCCATTTGGGAGGAAAACTAATGATGATTTGTTCTCTGTTGCTGGCTTACAAACCTCTGCT : ATTGGAGGAAGGAAGAACAAGAGGATAGTAACTGAGGCAAAGTTGAAAGTGGCTATCAATGGATTTGGAAGAATTGGAAGGAACTTCTTGAGGTGCTGGCATGGTAGAAAAGACTCACCTCTTGATGTCATTGCCATCAATGACACTGGTGGTGTCAAGCAAGCCTCTCACCTTCTCAAATATGACTCCACCCTTGGCATCTTTGATGCTGACGTCAAGCCGGTTGGCACTGATGGCATCTCTGTCGATGGAAAAGTCATCCAAGTCGTCTCCAACCGTGACCCTGTGAACCTCCCATGGGG : AGAACTTGGAGTTGACTTAGTCATAGAAGGTACCGGAGTTTTTGTAGACAGAGAAGGTGCCGGTAAACACATCCAGGCCGGAGCCAAGAAGGTGCTCATCACCGCCCCCGGAAAAGGTGACATCCCTACTTATGTTGTTGGTGTCAATGCTGAACTTTACAGCCATGATGAACCTATCATCAGCAATGCCTCTTGTACCACCAACTGCCTTGCTCCTTTCGTCAAGGTTCTTGACCAGAAATTTG : GAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACA : GGACTACAAAAAGAAAGTAGGACAAGTAAATTGAAACGGAGGGGAGTACAAGAT : CTCCAGAATATGCAGAACAAGCAACCCCGACTCGAAGAACAGAAACAAGAAA</gDNA_template>
            <first_frame> I  Y  L  S  S  I  I  S  S  I  F  F  P  P  F  I  H  S  *  T  S  T  I  F  L  H  Q  H  I  N  C  T  A  V  A  V  I  L  L  K  N  N  G  C  S  L  S  S  Q  H  F  S  *   : G  *  Q  Q  R  I  L  *  I  L  W  F  E  N  L  I  S  C  S  I  W  E  E  N  *  *  *  F  V  L  C  C  W  L  T  N  L  C   : Y  W  R  K  E  E  Q  E  D  S  N  *  G  K  V  E  S  G  Y  Q  W  I  W  K  N  W  K  E  L  L  E  V  L  A  W  *  K  R  L  T  S  *  C  H  C  H  Q  *  H  W  W  C  Q  A  S  L  S  P  S  Q  I  *  L  H  P  W  H  L  *  C  *  R  Q  A  G  W  H  *  W  H  L  C  R  W  K  S  H  P  S  R  L  Q  P  *  P  C  E  P  P  M  G  :  R  T  W  S  *  L  S  H  R  R  Y  R  S  F  C  R  Q  R  R  C  R  *  T  H  P  G  R  S  Q  E  G  A  H  H  R  P  R  K  R  *  H  P  Y  L  C  C  W  C  Q  C  *  T  L  Q  P  *  *  T  Y  H  Q  Q  C  L  L  Y  H  Q  L  P  C  S  F  R  Q  G  S  *  P  E  I  W :   N  Y  Q  G  N  N  D  N  Y  S  L  L  H  R  *  P  K  A  S  *  C  K  P  Q  G  S  *  T  C  T  S  C  S  T  E  H  S  S  N  L  N  W  C  C  *  G  C  G  S  C  S  P  K  P  Q  G  E  T  Q  R  H  C  P  P  C  S  H  P  *  R  L  G  C  G  P  C  C  A  S  H  Q  E  D  I  C  *  G  S  E  C  C  I  Q  R  G  R  *  *  G  T  Q  W  H  S  I  C  L  *  *  T  T  R  V  S  *  L  P  V  Q  *  R  V  I  N  C  *  F  F  T  H  H  G  H  G  R  *  H  G  *  G  Y  C  L  V  *  Q  *  M  G  L  L  T  E  G  C  *  S  C  *  H  C  C  K  P  V  E  M  K  H  E  N  K  I  K  Q  Y  Y  *  I  V  A  *  F  I  F  F  *  P  C  L  *  I  L  I  P  F  *  K  L  *  *  E  L  *  Q  F  S  T  L  *  N  L  N  S  I  K  V  P  F  L  V  F  I  Q :   D  Y  K  K  K  V  G  Q  V  N  *  N  G  G  E  Y  K  I :   S  R  I  C  R  T  S  N  P  D  S  K  N  R  N  K  K </first_frame>
            <second_frame>  S  I  Y  H  P  *  S  H  P  F  S  S  L  H  S  F  I  H  K  L  P  Q  F  F  F  I  N  T  *  T  V  L  L  L  L  *  F  S  *  R  T  M  A  A  L  S  V  A  N  T  S  L  K  :  V  N  N  K  G  F  S  E  F  S  G  L  R  T  S  S  A  V  P  F  G  R  K  T  N  D  D  L  F  S  V  A  G  L  Q  T  S  A  :  I  G  G  R  K  N  K  R  I  V  T  E  A  K  L  K  V  A  I  N  G  F  G  R  I  G  R  N  F  L  R  C  W  H  G  R  K  D  S  P  L  D  V  I  A  I  N  D  T  G  G  V  K  Q  A  S  H  L  L  K  Y  D  S  T  L  G  I  F  D  A  D  V  K  P  V  G  T  D  G  I  S  V  D  G  K  V  I  Q  V  V  S  N  R  D  P  V  N  L  P  W  G :   E  L  G  V  D  L  V  I  E  G  T  G  V  F  V  D  R  E  G  A  G  K  H  I  Q  A  G  A  K  K  V  L  I  T  A  P  G  K  G  D  I  P  T  Y  V  V  G  V  N  A  E  L  Y  S  H  D  E  P  I  I  S  N  A  S  C  T  T  N  C  L  A  P  F  V  K  V  L  D  Q  K  F   : G  I  I  K  G  T  M  T  T  T  H  S  Y  T  G  D  Q  R  L  L  D  A  S  H  R  D  L  R  R  A  R  A  A  A  L  N  I  V  P  T  S  T  G  A  A  K  A  V  A  L  V  L  P  S  L  K  G  K  L  N  G  I  A  L  R  V  P  T  P  N  V  S  V  V  D  L  V  V  Q  V  T  K  K  T  F  A  E  E  V  N  A  A  F  R  E  A  A  D  K  E  L  N  G  I  L  S  V  C  D  E  P  L  V  S  V  D  F  R  C  S  D  V  S  S  T  V  D  S  S  L  T  M  V  M  G  D  D  M  V  K  V  I  A  W  Y  D  N  E  W  G  Y  S  Q  R  V  V  D  L  A  D  I  V  A  N  Q  W  K  *  N  M  K  I  K  *  S  S  T  T  K  *  W  L  N  L  Y  F  F  N  L  A  C  R  F  L  F  L  F  E  N  C  N  E  N  Y  N  N  F  P  P  C  E  I  S  I  Q  *  K  S  P  F  L  S  L  Y   : R  T  T  K  R  K  *  D  K  *  I  E  T  E  G  S  T  R   : S  P  E  Y  A  E  Q  A  T  P  T  R  R  T  E  T  R   </second_frame>
            <third_frame>   L  S  I  I  H  N  L  I  H  F  L  P  S  I  H  S  F  I  N  F  H  N  F  S  S  S  T  H  K  L  Y  C  C  C  C  N  S  L  K  E  Q  W  L  L  S  Q  *  P  T  L  L  L  R :   L  T  T  K  D  S  L  N  S  L  V  *  E  P  H  Q  L  F  H  L  G  G  K  L  M  M  I  C  S  L  L  L  A  Y  K  P  L  L :   L  E  E  G  R  T  R  G  *  *  L  R  Q  S  *  K  W  L  S  M  D  L  E  E  L  E  G  T  S  *  G  A  G  M  V  E  K  T  H  L  L  M  S  L  P  S  M  T  L  V  V  S  S  K  P  L  T  F  S  N  M  T  P  P  L  A  S  L  M  L  T  S  S  R  L  A  L  M  A  S  L  S  M  E  K  S  S  K  S  S  P  T  V  T  L  *  T  S  H  G   : E  N  L  E  L  T  *  S  *  K  V  P  E  F  L  *  T  E  K  V  P  V  N  T  S  R  P  E  P  R  R  C  S  S  P  P  P  E  K  V  T  S  L  L  M  L  L  V  S  M  L  N  F  T  A  M  M  N  L  S  S  A  M  P  L  V  P  P  T  A  L  L  L  S  S  R  F  L  T  R  N  L  :  E  L  S  R  E  Q  *  Q  L  L  T  L  T  P  V  T  K  G  F  L  M  Q  A  T  G  I  L  D  V  H  E  L  Q  H  *  T  *  F  Q  P  Q  L  V  L  L  R  L  W  L  L  F  S  Q  A  S  R  G  N  S  T  A  L  P  S  V  F  P  P  L  T  S  R  L  W  T  L  L  C  K  S  P  R  R  H  L  L  R  K  *  M  L  H  S  E  R  P  L  I  R  N  S  M  A  F  Y  L  S  V  M  N  H  S  C  Q  L  T  S  G  A  V  T  C  H  Q  L  L  I  L  H  S  P  W  S  W  E  M  T  W  L  R  L  L  L  G  M  T  M  N  G  V  T  H  R  G  L  L  I  L  L  T  L  L  Q  T  S  G  N  E  T  *  K  *  N  K  A  V  L  L  N  S  G  L  I  Y  I  F  L  T  L  L  V  D  S  Y  S  F  L  K  I  V  M  R  T  I  T  I  F  H  L  V  K  S  Q  F  N  K  S  P  L  S  C  L  Y  T  :  G  L  Q  K  E  S  R  T  S  K  L  K  R  R  G  V  Q  D  :  L  Q  N  M  Q  N  K  Q  P  R  L  E  E  Q  K  Q  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="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="25200" stop="25159"/>
                    <exon start="25042" stop="24929"/>
                    <exon start="24030" stop="23729"/>
                    <exon start="23145" stop="22901"/>
                    <exon start="22811" stop="22309"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>1203</number_coding_nucleotides>
                  <number_encoded_amino_acids>401</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>RTMAALSVANTSLKVNNKGFSEFSGLRTSSAVPFGRKTNDDLFSVAGLQTSAIGGRKNKRIVTEAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVIAINDTGGVKQASHLLKYDSTLGIFDADVKPVGTDGISVDGKVIQVVSNRDPVNLPWGELGVDLVIEGTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNAELYSHDEPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVALVLPSLKGKLNGIALRVPTPNVSVVDLVVQVTKKTFAEEVNAAFREAADKELNGILSVCDEPLVSVDFRCSDVSSTVDSSLTMVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANQWK*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="2" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22295" stop="22140"/>
                    <exon start="21986" stop="21933"/>
                    <exon start="21602" stop="21552"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>261</number_coding_nucleotides>
                  <number_encoded_amino_acids>87</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NKAVLLNSGLIYIFLTLLVDSYSFLKIVMRTITIFHLVKSQFNKSPLSCLYTGLQKESRTSKLKRRGVQDLQNMQNKQPRLEEQKQE</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="22812" e_stop="22126"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="22812" e_stop="22126" e_length="687"/>
          </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="22812" stop="22334"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318882" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22793" stop="22135"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E733400" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22792" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348483" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22792" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E348618" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22789" stop="22372"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318755" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22758" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735088" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22724" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E286945" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22721" stop="22163"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E735231" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22716" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372443" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22714" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E740157" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22692" stop="22244"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289875" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22669" stop="22239"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E287400" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22645" stop="22180"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282878" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22612" stop="22185"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223046" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22600" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239036" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22593" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221082" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22589" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E217863" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22587" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E265239" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22583" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298696" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22583" stop="22172"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E284217" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22573" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278761" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22567" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224530" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22548" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222100" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E216991" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22547" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226809" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22543" stop="22185"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22542" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223168" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22539" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E226672" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22536" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E397305" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297123" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22535" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E297257" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22523" stop="22189"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279862" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22517" stop="22190"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E224750" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E293080" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22511" stop="22274"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E289271" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22473" stop="22151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278384" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22448" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E221401" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22446" stop="22145"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E238688" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22438" stop="22140"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E230176" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22342" stop="22128"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E541538" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22341" stop="22126"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295029" 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="3" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GGAATTATCAAGGGAACAATGACAACTACTCACTCTTACACCGGTGACCAAAGGCTTCTTGATGCAAGCCACAGGGATCTTAGACGTGCACGAGCTGCAGCACTGAACATAGTTCCAACCTCAACTGGTGCTGCTAAGGCTGTGGCTCTTGTTCTCCCAAGCCTCAAGGGGAAACTCAACGGCATTGCCCTCCGTGTTCCCACCCCTAACGTCTCGGTTGTGGACCTTGTTGTGCAAGTCACCAAGAAGACATTTGCTGAGGAAGTGAATGCTGCATTCAGAGAGGCCGCTGATAAGGAACTCAATGGCATTCTATCTGTCTGTGATGAACCACTCGTGTCAGTTGACTTCCGGTGCAGTGACGTGTCATCAACTGTTGATTCTTCACTCACCATGGTCATGGGAGATGACATGGTTAAGGTTATTGCTTGGTATGACAATGAATGGGGTTACTCACAGAGGGTTGTTGATCTTGCTGACATTGTTGCAAACCAGTGGAAATGAAACATGAAAATAAAATAAAGCAGTACTACTAAATAGTGGCTTAATTTATATTTTTTTAACCTTGCTTGTAGATTCTTATTCCTTTTTGAAAATTGTAATGAGAACTATAACAATTTTCCACCTTGTGAAATCTCAATTCAATAAAAGTCCCCTTTCTTGTCTTTATACAGTCCGCTTCTGTAT</gDNA_template>
            <first_frame> G  I  I  K  G  T  M  T  T  T  H  S  Y  T  G  D  Q  R  L  L  D  A  S  H  R  D  L  R  R  A  R  A  A  A  L  N  I  V  P  T  S  T  G  A  A  K  A  V  A  L  V  L  P  S  L  K  G  K  L  N  G  I  A  L  R  V  P  T  P  N  V  S  V  V  D  L  V  V  Q  V  T  K  K  T  F  A  E  E  V  N  A  A  F  R  E  A  A  D  K  E  L  N  G  I  L  S  V  C  D  E  P  L  V  S  V  D  F  R  C  S  D  V  S  S  T  V  D  S  S  L  T  M  V  M  G  D  D  M  V  K  V  I  A  W  Y  D  N  E  W  G  Y  S  Q  R  V  V  D  L  A  D  I  V  A  N  Q  W  K  *  N  M  K  I  K  *  S  S  T  T  K  *  W  L  N  L  Y  F  F  N  L  A  C  R  F  L  F  L  F  E  N  C  N  E  N  Y  N  N  F  P  P  C  E  I  S  I  Q  *  K  S  P  F  L  S  L  Y  S  P  L  L  Y </first_frame>
            <second_frame>  E  L  S  R  E  Q  *  Q  L  L  T  L  T  P  V  T  K  G  F  L  M  Q  A  T  G  I  L  D  V  H  E  L  Q  H  *  T  *  F  Q  P  Q  L  V  L  L  R  L  W  L  L  F  S  Q  A  S  R  G  N  S  T  A  L  P  S  V  F  P  P  L  T  S  R  L  W  T  L  L  C  K  S  P  R  R  H  L  L  R  K  *  M  L  H  S  E  R  P  L  I  R  N  S  M  A  F  Y  L  S  V  M  N  H  S  C  Q  L  T  S  G  A  V  T  C  H  Q  L  L  I  L  H  S  P  W  S  W  E  M  T  W  L  R  L  L  L  G  M  T  M  N  G  V  T  H  R  G  L  L  I  L  L  T  L  L  Q  T  S  G  N  E  T  *  K  *  N  K  A  V  L  L  N  S  G  L  I  Y  I  F  L  T  L  L  V  D  S  Y  S  F  L  K  I  V  M  R  T  I  T  I  F  H  L  V  K  S  Q  F  N  K  S  P  L  S  C  L  Y  T  V  R  F  C   </second_frame>
            <third_frame>   N  Y  Q  G  N  N  D  N  Y  S  L  L  H  R  *  P  K  A  S  *  C  K  P  Q  G  S  *  T  C  T  S  C  S  T  E  H  S  S  N  L  N  W  C  C  *  G  C  G  S  C  S  P  K  P  Q  G  E  T  Q  R  H  C  P  P  C  S  H  P  *  R  L  G  C  G  P  C  C  A  S  H  Q  E  D  I  C  *  G  S  E  C  C  I  Q  R  G  R  *  *  G  T  Q  W  H  S  I  C  L  *  *  T  T  R  V  S  *  L  P  V  Q  *  R  V  I  N  C  *  F  F  T  H  H  G  H  G  R  *  H  G  *  G  Y  C  L  V  *  Q  *  M  G  L  L  T  E  G  C  *  S  C  *  H  C  C  K  P  V  E  M  K  H  E  N  K  I  K  Q  Y  Y  *  I  V  A  *  F  I  F  F  *  P  C  L  *  I  L  I  P  F  *  K  L  *  *  E  L  *  Q  F  S  T  L  *  N  L  N  S  I  K  V  P  F  L  V  F  I  Q  S  A  S  V  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22812" stop="22309"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>501</number_coding_nucleotides>
                  <number_encoded_amino_acids>167</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVALVLPSLKGKLNGIALRVPTPNVSVVDLVVQVTKKTFAEEVNAAFREAADKELNGILSVCDEPLVSVDFRCSDVSSTVDSSLTMVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANQWK*</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="22138" PGL_stop="22730"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="22138" e_stop="22730"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="22138" e_stop="22730" e_length="593"/>
          </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="22138" stop="22448"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E355947" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22139" stop="22646"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E282185" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22140" stop="22662"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291969" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22140" stop="22552"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E291348" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22149" stop="22629"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298933" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22159" stop="22355"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211355" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22163" stop="22665"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277464" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="22199" stop="22730"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E279454" 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>ACTGTATAAAGACAAGAAAGGGGACTTTTATTGAATTGAGATTTCACAAGGTGGAAAATTGTTATAGTTCTCATTACAATTTTCAAAAAGGAATAAGAATCTACAAGCAAGGTTAAAAAAATATAAATTAAGCCACTATTTAGTAGTACTGCTTTATTTTATTTTCATGTTTCATTTCCACTGGTTTGCAACAATGTCAGCAAGATCAACAACCCTCTGTGAGTAACCCCATTCATTGTCATACCAAGCAATAACCTTAACCATGTCATCTCCCATGACCATGGTGAGTGAAGAATCAACAGTTGATGACACGTCACTGCACCGGAAGTCAACTGACACGAGTGGTTCATCACAGACAGATAGAATGCCATTGAGTTCCTTATCAGCGGCCTCTCTGAATGCAGCATTCACTTCCTCAGCAAATGTCTTCTTGGTGACTTGCACAACAAGGTCCACAACCGAGACGTTAGGGGTGGGAACACGGAGGGCAATGCCGTTGAGTTTCCCCTTGAGGCTTGGGAGAACAAGAGCCACAGCCTTAGCAGCACCAGTTGAGGTTGGAACTATGTTCAGTGCTGCAGCTCGTGCACGTC</gDNA_template>
            <first_frame> T  V  *  R  Q  E  R  G  L  L  L  N  *  D  F  T  R  W  K  I  V  I  V  L  I  T  I  F  K  K  E  *  E  S  T  S  K  V  K  K  I  *  I  K  P  L  F  S  S  T  A  L  F  Y  F  H  V  S  F  P  L  V  C  N  N  V  S  K  I  N  N  P  L  *  V  T  P  F  I  V  I  P  S  N  N  L  N  H  V  I  S  H  D  H  G  E  *  R  I  N  S  *  *  H  V  T  A  P  E  V  N  *  H  E  W  F  I  T  D  R  *  N  A  I  E  F  L  I  S  G  L  S  E  C  S  I  H  F  L  S  K  C  L  L  G  D  L  H  N  K  V  H  N  R  D  V  R  G  G  N  T  E  G  N  A  V  E  F  P  L  E  A  W  E  N  K  S  H  S  L  S  S  T  S  *  G  W  N  Y  V  Q  C  C  S  S  C  T   </first_frame>
            <second_frame>  L  Y  K  D  K  K  G  D  F  Y  *  I  E  I  S  Q  G  G  K  L  L  *  F  S  L  Q  F  S  K  R  N  K  N  L  Q  A  R  L  K  K  Y  K  L  S  H  Y  L  V  V  L  L  Y  F  I  F  M  F  H  F  H  W  F  A  T  M  S  A  R  S  T  T  L  C  E  *  P  H  S  L  S  Y  Q  A  I  T  L  T  M  S  S  P  M  T  M  V  S  E  E  S  T  V  D  D  T  S  L  H  R  K  S  T  D  T  S  G  S  S  Q  T  D  R  M  P  L  S  S  L  S  A  A  S  L  N  A  A  F  T  S  S  A  N  V  F  L  V  T  C  T  T  R  S  T  T  E  T  L  G  V  G  T  R  R  A  M  P  L  S  F  P  L  R  L  G  R  T  R  A  T  A  L  A  A  P  V  E  V  G  T  M  F  S  A  A  A  R  A  R  </second_frame>
            <third_frame>   C  I  K  T  R  K  G  T  F  I  E  L  R  F  H  K  V  E  N  C  Y  S  S  H  Y  N  F  Q  K  G  I  R  I  Y  K  Q  G  *  K  N  I  N  *  A  T  I  *  *  Y  C  F  I  L  F  S  C  F  I  S  T  G  L  Q  Q  C  Q  Q  D  Q  Q  P  S  V  S  N  P  I  H  C  H  T  K  Q  *  P  *  P  C  H  L  P  *  P  W  *  V  K  N  Q  Q  L  M  T  R  H  C  T  G  S  Q  L  T  R  V  V  H  H  R  Q  I  E  C  H  *  V  P  Y  Q  R  P  L  *  M  Q  H  S  L  P  Q  Q  M  S  S  W  *  L  A  Q  Q  G  P  Q  P  R  R  *  G  W  E  H  G  G  Q  C  R  *  V  S  P  *  G  L  G  E  Q  E  P  Q  P  *  Q  H  Q  L  R  L  E  L  C  S  V  L  Q  L  V  H  V </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="22364" stop="22729"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>366</number_coding_nucleotides>
                  <number_encoded_amino_acids>122</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PHSLSYQAITLTMSSPMTMVSEESTVDDTSLHRKSTDTSGSSQTDRMPLSSLSAASLNAAFTSSANVFLVTCTTRSTTETLGVGTRRAMPLSFPLRLGRTRATALAAPVEVGTMFSAAARAR</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="30442" PGL_stop="28058"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="30442" e_stop="30427"/>
            <exon e_start="30322" e_stop="30263"/>
            <exon e_start="29823" e_stop="29578"/>
            <exon e_start="29344" e_stop="29234"/>
            <exon e_start="29035" e_stop="28859"/>
            <exon e_start="28750" e_stop="28058"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.979" acc_prob="1.000" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.880" e_score="0.983"/>
          <exon-intron don_prob="0.986" acc_prob="0.999" e_score="0.992"/>
          <exon-intron don_prob="0.998" acc_prob="0.969" e_score="1.000"/>
          <exon-intron don_prob="0.999" acc_prob="0.850" e_score="1.000"/>
          <exon-only e_score="0.998"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="30442" e_stop="30427" e_length="16"/>
          </exon>
          <intron i_serial="1" don_prob="0.979" acc_prob="1.000">
            <gDNA_intron_boundary i_start="30426" i_stop="30323" i_length="104"/>
          </intron>
          <exon e_serial="2" e_score="0.983">
            <gDNA_exon_boundary e_start="30322" e_stop="30263" e_length="60"/>
          </exon>
          <intron i_serial="2" don_prob="0.999" acc_prob="0.880">
            <gDNA_intron_boundary i_start="30262" i_stop="29824" i_length="439"/>
          </intron>
          <exon e_serial="3" e_score="0.992">
            <gDNA_exon_boundary e_start="29823" e_stop="29578" e_length="246"/>
          </exon>
          <intron i_serial="3" don_prob="0.986" acc_prob="0.999">
            <gDNA_intron_boundary i_start="29577" i_stop="29345" i_length="233"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="29344" e_stop="29234" e_length="111"/>
          </exon>
          <intron i_serial="4" don_prob="0.998" acc_prob="0.969">
            <gDNA_intron_boundary i_start="29233" i_stop="29036" i_length="198"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="29035" e_stop="28859" e_length="177"/>
          </exon>
          <intron i_serial="5" don_prob="0.999" acc_prob="0.850">
            <gDNA_intron_boundary i_start="28858" i_stop="28751" i_length="108"/>
          </intron>
          <exon e_serial="6" e_score="0.998">
            <gDNA_exon_boundary e_start="28750" e_stop="28058" e_length="693"/>
          </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="30442" stop="30427"/>
              <exon start="30322" stop="30263"/>
              <exon start="29823" stop="29578"/>
              <exon start="29344" stop="29234"/>
              <exon start="29035" stop="28927"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E331610" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="29787" stop="29578"/>
              <exon start="29344" stop="29234"/>
              <exon start="29035" stop="28859"/>
              <exon start="28750" stop="28550"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E321798" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="28744" stop="28222"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E295160" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="28341" stop="28058"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E277215" 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>TTGTGCTAGTTGGCTG : GCATGGGCTCAACTAGAGGCTCAGTTAGAGAATAACCGTTCCGCTAGGCAGCTGTTTGAG : AAAGCAGTTCAAGCCAGTCCGAAAAATAGGTTCGCGTGGCATGTATGGGGAGTTTTTGAAGCTAATCTAGGAAATATTGATCAAGGAAGGAAACTTCTAACAATAGGGCACATGGTGAATCCTAGAGATCCTGTTCTTCTCCAATCACTTGGTTTGATAGAATACAAGAACTCCAGTGCAAACCTTGCACGAGTTCTATTCCGAAGAGCGTCTCAACTAGATCCAAGGCATCAACCAGTTTGGATT : GCTTGGGGTTGGATGGAGTGGAAAGAAGGAAACATTTCCACAGCTCGAGAACTATACCAGAAGGCTCTATCGATCAACTCAACAACTGAAAGTGCTGCGCGTTGTCTTCAG : GCTTGGGGTGTTTTGGAGCAAAGAGCTGGAAATCTATCAGCTGCTCGAAGACTATTTAGATCGTCTCTGAACATAAACTCTCAGAGCTATATAACATGGATGACATGGGCAAATTTAGAGGAAGATCAAGGTAACTCTATCCGTGCAGAGGAAATTCGTAACCTCTACTTTCAACAG : CGTACTGAAGTTGTTGATGATGAGTCGTGGATTATGGGCTTCTTAGACGTCATTGACCCAGCGATTGACAGCATAAAGAGGCTCTTGAATCTAGATCAGAACTCTTACTACAAGGTAAAAGAGTCTGCTTCTAATACTACTGCTGGAGACGACGTTGAGGGGAGCACAGAAGAATCAGCTTCTCCCTCCTCGGCTAACGTCAATGACAATAACATAGATACAGGAAGTGGCTTTGATTTAGATGATTTTATCAGTGTAATGCTGTCTTTAGACCCTTCAAAGCTGGAAGTTCAGCTTACAACATCTCTTAAGGACCCTCCGAAAATCGCCAGAACTACTAATGGGGTGTGGCGACCATCGACAAAGACTAGTAGAACATCAACAACACTTTGATTTTACAACAACAACGACATACTTAATGTAACCTCACTAGTGTGGTCTGGGAGGGCGGAGGACGAAAGGTGATGTGTTGCAGCCTTACCTTTACCTCGTGAAGGTAGAGAGACTGTTTCTGACTCAGCTCAATATGAAGTTTATTGTTCTTTAGTGGGAATTGCAACATTCATTAATGTTGTCAAATGAAGAAGTCTTGGTCCACATTTTGTAAATTACTTAGGAATATTGAGAAGAATTGTATAAATTTGATTGTGAAAGAGATACAAATCTACACATATTATGAGTAAACATTGTATA</gDNA_template>
            <first_frame> L  C  *  L  A   : G  M  G  S  T  R  G  S  V  R  E  *  P  F  R  *  A  A  V  *   : E  S  S  S  S  Q  S  E  K  *  V  R  V  A  C  M  G  S  F  *  S  *  S  R  K  Y  *  S  R  K  E  T  S  N  N  R  A  H  G  E  S  *  R  S  C  S  S  P  I  T  W  F  D  R  I  Q  E  L  Q  C  K  P  C  T  S  S  I  P  K  S  V  S  T  R  S  K  A  S  T  S  L  D   : C  L  G  L  D  G  V  E  R  R  K  H  F  H  S  S  R  T  I  P  E  G  S  I  D  Q  L  N  N  *  K  C  C  A  L  S  S   : G  L  G  C  F  G  A  K  S  W  K  S  I  S  C  S  K  T  I  *  I  V  S  E  H  K  L  S  E  L  Y  N  M  D  D  M  G  K  F  R  G  R  S  R  *  L  Y  P  C  R  G  N  S  *  P  L  L  S  T   : A  Y  *  S  C  *  *  *  V  V  D  Y  G  L  L  R  R  H  *  P  S  D  *  Q  H  K  E  A  L  E  S  R  S  E  L  L  L  Q  G  K  R  V  C  F  *  Y  Y  C  W  R  R  R  *  G  E  H  R  R  I  S  F  S  L  L  G  *  R  Q  *  Q  *  H  R  Y  R  K  W  L  *  F  R  *  F  Y  Q  C  N  A  V  F  R  P  F  K  A  G  S  S  A  Y  N  I  S  *  G  P  S  E  N  R  Q  N  Y  *  W  G  V  A  T  I  D  K  D  *  *  N  I  N  N  T  L  I  L  Q  Q  Q  R  H  T  *  C  N  L  T  S  V  V  W  E  G  G  G  R  K  V  M  C  C  S  L  T  F  T  S  *  R  *  R  D  C  F  *  L  S  S  I  *  S  L  L  F  F  S  G  N  C  N  I  H  *  C  C  Q  M  K  K  S  W  S  T  F  C  K  L  L  R  N  I  E  K  N  C  I  N  L  I  V  K  E  I  Q  I  Y  T  Y  Y  E  *  T  L  Y  </first_frame>
            <second_frame>  C  A  S  W  L  :  A  W  A  Q  L  E  A  Q  L  E  N  N  R  S  A  R  Q  L  F  E  :  K  A  V  Q  A  S  P  K  N  R  F  A  W  H  V  W  G  V  F  E  A  N  L  G  N  I  D  Q  G  R  K  L  L  T  I  G  H  M  V  N  P  R  D  P  V  L  L  Q  S  L  G  L  I  E  Y  K  N  S  S  A  N  L  A  R  V  L  F  R  R  A  S  Q  L  D  P  R  H  Q  P  V  W  I  :  A  W  G  W  M  E  W  K  E  G  N  I  S  T  A  R  E  L  Y  Q  K  A  L  S  I  N  S  T  T  E  S  A  A  R  C  L  Q  :  A  W  G  V  L  E  Q  R  A  G  N  L  S  A  A  R  R  L  F  R  S  S  L  N  I  N  S  Q  S  Y  I  T  W  M  T  W  A  N  L  E  E  D  Q  G  N  S  I  R  A  E  E  I  R  N  L  Y  F  Q  Q  :  R  T  E  V  V  D  D  E  S  W  I  M  G  F  L  D  V  I  D  P  A  I  D  S  I  K  R  L  L  N  L  D  Q  N  S  Y  Y  K  V  K  E  S  A  S  N  T  T  A  G  D  D  V  E  G  S  T  E  E  S  A  S  P  S  S  A  N  V  N  D  N  N  I  D  T  G  S  G  F  D  L  D  D  F  I  S  V  M  L  S  L  D  P  S  K  L  E  V  Q  L  T  T  S  L  K  D  P  P  K  I  A  R  T  T  N  G  V  W  R  P  S  T  K  T  S  R  T  S  T  T  L  *  F  Y  N  N  N  D  I  L  N  V  T  S  L  V  W  S  G  R  A  E  D  E  R  *  C  V  A  A  L  P  L  P  R  E  G  R  E  T  V  S  D  S  A  Q  Y  E  V  Y  C  S  L  V  G  I  A  T  F  I  N  V  V  K  *  R  S  L  G  P  H  F  V  N  Y  L  G  I  L  R  R  I  V  *  I  *  L  *  K  R  Y  K  S  T  H  I  M  S  K  H  C  I </second_frame>
            <third_frame>   V  L  V  G  W :   H  G  L  N  *  R  L  S  *  R  I  T  V  P  L  G  S  C  L  R :   K  Q  F  K  P  V  R  K  I  G  S  R  G  M  Y  G  E  F  L  K  L  I  *  E  I  L  I  K  E  G  N  F  *  Q  *  G  T  W  *  I  L  E  I  L  F  F  S  N  H  L  V  *  *  N  T  R  T  P  V  Q  T  L  H  E  F  Y  S  E  E  R  L  N  *  I  Q  G  I  N  Q  F  G  L :   L  G  V  G  W  S  G  K  K  E  T  F  P  Q  L  E  N  Y  T  R  R  L  Y  R  S  T  Q  Q  L  K  V  L  R  V  V  F  R :   L  G  V  F  W  S  K  E  L  E  I  Y  Q  L  L  E  D  Y  L  D  R  L  *  T  *  T  L  R  A  I  *  H  G  *  H  G  Q  I  *  R  K  I  K  V  T  L  S  V  Q  R  K  F  V  T  S  T  F  N  S :   V  L  K  L  L  M  M  S  R  G  L  W  A  S  *  T  S  L  T  Q  R  L  T  A  *  R  G  S  *  I  *  I  R  T  L  T  T  R  *  K  S  L  L  L  I  L  L  L  E  T  T  L  R  G  A  Q  K  N  Q  L  L  P  P  R  L  T  S  M  T  I  T  *  I  Q  E  V  A  L  I  *  M  I  L  S  V  *  C  C  L  *  T  L  Q  S  W  K  F  S  L  Q  H  L  L  R  T  L  R  K  S  P  E  L  L  M  G  C  G  D  H  R  Q  R  L  V  E  H  Q  Q  H  F  D  F  T  T  T  T  T  Y  L  M  *  P  H  *  C  G  L  G  G  R  R  T  K  G  D  V  L  Q  P  Y  L  Y  L  V  K  V  E  R  L  F  L  T  Q  L  N  M  K  F  I  V  L  *  W  E  L  Q  H  S  L  M  L  S  N  E  E  V  L  V  H  I  L  *  I  T  *  E  Y  *  E  E  L  Y  K  F  D  C  E  R  D  T  N  L  H  I  L  *  V  N  I  V   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="4" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="30441" stop="30427"/>
                    <exon start="30322" stop="30263"/>
                    <exon start="29823" stop="29578"/>
                    <exon start="29344" stop="29234"/>
                    <exon start="29035" stop="28859"/>
                    <exon start="28750" stop="28358"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>999</number_coding_nucleotides>
                  <number_encoded_amino_acids>333</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>CASWLAWAQLEAQLENNRSARQLFEKAVQASPKNRFAWHVWGVFEANLGNIDQGRKLLTIGHMVNPRDPVLLQSLGLIEYKNSSANLARVLFRRASQLDPRHQPVWIAWGWMEWKEGNISTARELYQKALSINSTTESAARCLQAWGVLEQRAGNLSAARRLFRSSLNINSQSYITWMTWANLEEDQGNSIRAEEIRNLYFQQRTEVVDDESWIMGFLDVIDPAIDSIKRLLNLDQNSYYKVKESASNTTAGDDVEGSTEESASPSSANVNDNNIDTGSGFDLDDFISVMLSLDPSKLEVQLTTSLKDPPKIARTTNGVWRPSTKTSRTSTTL*</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="33636" PGL_stop="31698"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="33636" e_stop="33596"/>
            <exon e_start="32429" e_stop="31698"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.808" acc_prob="0.989" e_score="0.878"/>
          <exon-only e_score="0.997"/>
        </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="0.878">
            <gDNA_exon_boundary e_start="33636" e_stop="33596" e_length="41"/>
          </exon>
          <intron i_serial="1" don_prob="0.808" acc_prob="0.989">
            <gDNA_intron_boundary i_start="33595" i_stop="32430" i_length="1166"/>
          </intron>
          <exon e_serial="2" e_score="0.997">
            <gDNA_exon_boundary e_start="32429" e_stop="31698" e_length="732"/>
          </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="33636" stop="33596"/>
              <exon start="32429" stop="31698"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E738836" 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>AATCAGTGGATCTCTGGTTTTATTTTGTTTTACCTTCAATA : AGTAACAGGATACAGAGGGGATAATCTTTTCTATGAGGAAGTGCAAGTCTTGATTTTTTTTCCATATAAGCCTTGCTTCTTAGAATCTGTTGAACTATCGAAAAGTTTGAGCTATTCGACACCAAATTTCTCTTAGTCTTTGAAGTTTATCGGCTTATTCTTTCATCTCCAGATAGAAACCGATATTCAATCACCATTGTATTCCATTAAGTATATGACAGTGTTACCAAAGTGTAGATACAAGTAAAGCAATGAGTCAGTTTTCGTTTACTTCTTCTTCGAGCTCTAATTTCACTCTCTTCTATCATTCTCAGAATCATAATCCTTCAAAGTTTCATGTTTCTGCTCCCTTTAGAACATCCCAACCATCGCCTTCACATCCTATTTTACCTCCCTTATGTTCCCGTGATCCGTCTTCCTCATCACCACTTCTTGAAGAAAAGCCAGAAACATCACAATCTTCTTCTAAGTTTGATCCTCAAGATACACTAAGTTACAATGATGAAGTTTCTGAGGAGATCAGCACTACAAAGAAGTCCTTGGAAGAGTTACTTGTTGTTCGTAGGCCGGTGAAGGAGTCTTCCGTGGAAAATGATGATGAAAAAGGGGAAGCAGTGAGTAACTTTGAGGATTCTCAAGAGAGAAATGATATTCTGGAAGAACAACCATCTTCCTCATCATTTCCACTTGATGCTGGCCTTAAGAAATTTGCAAAAAAAGTGCCAATTTTTG</gDNA_template>
            <first_frame> N  Q  W  I  S  G  F  I  L  F  Y  L  Q  * :   V  T  G  Y  R  G  D  N  L  F  Y  E  E  V  Q  V  L  I  F  F  P  Y  K  P  C  F  L  E  S  V  E  L  S  K  S  L  S  Y  S  T  P  N  F  S  *  S  L  K  F  I  G  L  F  F  H  L  Q  I  E  T  D  I  Q  S  P  L  Y  S  I  K  Y  M  T  V  L  P  K  C  R  Y  K  *  S  N  E  S  V  F  V  Y  F  F  F  E  L  *  F  H  S  L  L  S  F  S  E  S  *  S  F  K  V  S  C  F  C  S  L  *  N  I  P  T  I  A  F  T  S  Y  F  T  S  L  M  F  P  *  S  V  F  L  I  T  T  S  *  R  K  A  R  N  I  T  I  F  F  *  V  *  S  S  R  Y  T  K  L  Q  *  *  S  F  *  G  D  Q  H  Y  K  E  V  L  G  R  V  T  C  C  S  *  A  G  E  G  V  F  R  G  K  *  *  *  K  R  G  S  S  E  *  L  *  G  F  S  R  E  K  *  Y  S  G  R  T  T  I  F  L  I  I  S  T  *  C  W  P  *  E  I  C  K  K  S  A  N  F   </first_frame>
            <second_frame>  I  S  G  S  L  V  L  F  C  F  T  F  N   : K  *  Q  D  T  E  G  I  I  F  S  M  R  K  C  K  S  *  F  F  F  H  I  S  L  A  S  *  N  L  L  N  Y  R  K  V  *  A  I  R  H  Q  I  S  L  S  L  *  S  L  S  A  Y  S  F  I  S  R  *  K  P  I  F  N  H  H  C  I  P  L  S  I  *  Q  C  Y  Q  S  V  D  T  S  K  A  M  S  Q  F  S  F  T  S  S  S  S  S  N  F  T  L  F  Y  H  S  Q  N  H  N  P  S  K  F  H  V  S  A  P  F  R  T  S  Q  P  S  P  S  H  P  I  L  P  P  L  C  S  R  D  P  S  S  S  S  P  L  L  E  E  K  P  E  T  S  Q  S  S  S  K  F  D  P  Q  D  T  L  S  Y  N  D  E  V  S  E  E  I  S  T  T  K  K  S  L  E  E  L  L  V  V  R  R  P  V  K  E  S  S  V  E  N  D  D  E  K  G  E  A  V  S  N  F  E  D  S  Q  E  R  N  D  I  L  E  E  Q  P  S  S  S  S  F  P  L  D  A  G  L  K  K  F  A  K  K  V  P  I  F  </second_frame>
            <third_frame>   S  V  D  L  W  F  Y  F  V  L  P  S  I  :  S  N  R  I  Q  R  G  *  S  F  L  *  G  S  A  S  L  D  F  F  S  I  *  A  L  L  L  R  I  C  *  T  I  E  K  F  E  L  F  D  T  K  F  L  L  V  F  E  V  Y  R  L  I  L  S  S  P  D  R  N  R  Y  S  I  T  I  V  F  H  *  V  Y  D  S  V  T  K  V  *  I  Q  V  K  Q  *  V  S  F  R  L  L  L  L  R  A  L  I  S  L  S  S  I  I  L  R  I  I  I  L  Q  S  F  M  F  L  L  P  L  E  H  P  N  H  R  L  H  I  L  F  Y  L  P  Y  V  P  V  I  R  L  P  H  H  H  F  L  K  K  S  Q  K  H  H  N  L  L  L  S  L  I  L  K  I  H  *  V  T  M  M  K  F  L  R  R  S  A  L  Q  R  S  P  W  K  S  Y  L  L  F  V  G  R  *  R  S  L  P  W  K  M  M  M  K  K  G  K  Q  *  V  T  L  R  I  L  K  R  E  M  I  F  W  K  N  N  H  L  P  H  H  F  H  L  M  L  A  L  R  N  L  Q  K  K  C  Q  F  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="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="5" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="32211" stop="31699"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>513</number_coding_nucleotides>
                  <number_encoded_amino_acids>171</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QCYQSVDTSKAMSQFSFTSSSSSNFTLFYHSQNHNPSKFHVSAPFRTSQPSPSHPILPPLCSRDPSSSSPLLEEKPETSQSSSKFDPQDTLSYNDEVSEEISTTKKSLEELLVVRRPVKESSVENDDEKGEAVSNFEDSQERNDILEEQPSSSSFPLDAGLKKFAKKVPIF</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="38432" PGL_stop="40664"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="38437" e_stop="38479"/>
            <exon e_start="39521" e_stop="40664"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.778" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="38437" e_stop="38479" e_length="43"/>
          </exon>
          <intron i_serial="1" don_prob="0.778" acc_prob="0.999">
            <gDNA_intron_boundary i_start="38480" i_stop="39520" i_length="1041"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="39521" e_stop="40664" e_length="1144"/>
          </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="38437" stop="38479"/>
              <exon start="39521" stop="40211"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548849" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38437" stop="38479"/>
              <exon start="39521" stop="40205"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E543269" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="38438" stop="38479"/>
              <exon start="39521" stop="39926"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E303799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39610" stop="40109"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324487" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39997" stop="40664"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E543262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40067" stop="40656"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548850" 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>CTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTT : GGAAATGTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAGGTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGAAAGGCTTT</gDNA_template>
            <first_frame> L  N  *  N  N  Y  L  A  F  I  R  S  G  C   : W  K  C  H  S  *  R  I  V  S  L  I  L  K  P  I  L  W  C  *  L  Y  R  A  H  Q  H  F  Q  V  W  S  *  N  L  K  H  S  V  S  Y  F  Q  A  F  D  D  S  D  *  D  L  I  L  V  T  L  T  R  G  F  V  *  L  I  R  V  K  W  Q  S  F  L  D  I  Q  H  A  D  N  Y  C  K  C  S  F  Q  L  Y  S  S  M  F  P  S  T  F  W  H  L  S  F  M  G  S  R  M  Y  L  L  S  R  F  *  *  A  N  I  M  Y  *  Q  C  F  A  P  *  *  N  T  L  L  K  S  I  S  F  P  A  *  R  N  I  G  G  *  V  I  L  A  S  Q  W  L  S  S  E  K  S  *  G  S  W  Q  L  *  Q  Q  A  K  P  S  L  I  *  *  R  F  I  M  R  K  I  I  S  W  L  R  M  G  S  I  D  L  S  G  I  P  V  T  V  V  S  S  S  G  L  L  V  H  K  *  C  Y  V  I  Q  Y  Q  P  L  H  S  Q  L  L  C  G  N  S  S  R  E  G  Y  L  T  R  S  F  S  S  S  S  S  L  V  L  T  T  K  I  I  *  E  K  F  L  L  V  F  H  L  *  G  D  Y  I  L  F  S  A  L  Y  I  H  A  *  R  H  L  L  I  G  A  E  I  T  L  F  M  N  F  I  F  L  D  T  L  Y  S  F  H  N  M  K  F  A  R  K  R  F  L  L  D  I  T  S  E  V  M  L  L  L  T  L  V  *  R  V  Y  L  I  C  I  I  M  F  S  S  Y  H  V  F  V  K  T  *  V  N  C  S  C  G  E  L  *  V  I  T  V  F  V  F  M  A  *  W  D  S  V  F  I  I  L  L  R  R  R  K  A   </first_frame>
            <second_frame>  L  I  K  I  I  T  S  P  S  S  D  L  V  V  :  G  N  V  I  L  K  G  *  F  H  *  F  *  S  P  F  C  G  A  N  C  T  E  L  I  N  I  F  R  F  G  V  E  I  *  N  I  A  Y  H  I  F  K  P  L  M  T  Q  T  E  T  S  F  *  *  L  *  R  E  V  L  F  D  L  F  A  *  N  G  R  A  F  W  I  Y  S  M  Q  T  I  I  A  N  V  H  F  N  Y  I  L  P  C  F  R  V  H  S  G  T  C  L  S  W  E  V  E  C  I  F  *  V  A  F  D  K  Q  T  L  C  T  S  N  V  L  L  L  D  R  I  P  Y  *  N  L  F  L  S  R  L  K  G  I  L  V  D  K  *  F  W  P  R  N  G  C  P  R  R  N  H  K  E  V  G  N  C  D  S  R  P  S  L  H  S  S  N  K  G  L  S  *  G  K  S  S  V  G  Y  E  W  D  L  *  I  C  P  A  S  R  L  L  W  F  L  H  L  V  C  W  Y  T  N  N  A  M  *  S  N  I  N  H  C  I  H  S  C  C  V  E  I  L  L  G  K  D  T  L  R  G  V  F  P  Q  A  V  L  W  F  *  L  R  R  L  Y  E  K  S  S  F  W  Y  S  T  C  E  V  I  I  S  S  S  V  L  Y  I  F  M  P  N  V  I  C  S  S  V  L  R  *  H  C  L  *  I  L  S  S  *  T  L  F  T  V  F  I  T  *  S  S  P  E  K  G  S  S  *  I  *  L  L  R  *  C  F  Y  *  P  L  Y  S  A  F  I  L  F  V  S  S  C  F  R  R  I  M  S  L  L  R  L  R  *  T  V  L  V  G  S  C  K  L  *  L  Y  L  Y  L  W  L  D  G  T  V  F  L  S  Y  S  *  G  E  E  R  L  </second_frame>
            <third_frame>   *  L  K  *  L  P  R  L  H  Q  I  W  L  L :   E  M  S  F  L  K  D  S  F  I  D  S  E  A  H  F  V  V  L  I  V  Q  S  S  S  T  F  S  G  L  E  L  K  F  E  T  *  R  I  I  F  S  S  L  *  *  L  R  L  R  P  H  F  S  N  F  N  E  R  F  C  L  T  Y  S  R  E  M  A  E  L  F  G  Y  T  A  C  R  Q  L  L  Q  M  F  I  S  I  I  F  F  H  V  S  E  Y  I  L  A  L  V  F  H  G  K  S  N  V  S  F  K  S  L  L  I  S  K  H  Y  V  L  A  M  F  C  S  L  I  E  Y  L  I  E  I  Y  F  F  P  G  L  K  E  Y  W  W  I  S  N  F  G  L  A  M  V  V  L  G  E  I  I  R  K  L  A  I  V  T  A  G  Q  A  F  T  H  L  I  K  V  Y  H  E  E  N  H  Q  L  V  T  N  G  I  Y  R  F  V  R  H  P  G  Y  C  G  F  F  I  W  S  V  G  T  Q  I  M  L  C  N  P  I  S  T  I  A  F  T  V  V  V  W  K  F  F  S  G  R  I  P  Y  E  E  F  F  L  K  Q  F  F  G  S  D  Y  E  D  Y  M  R  K  V  P  S  G  I  P  L  V  R  *  L  Y  P  L  Q  C  S  I  Y  S  C  L  T  S  S  A  H  R  C  *  D  N  T  V  Y  E  F  Y  L  L  R  H  S  L  Q  F  S  *  H  E  V  R  Q  K  K  V  P  P  R  Y  N  F  *  G  D  A  S  I  N  P  C  I  A  R  L  S  Y  L  Y  H  H  V  F  V  V  S  C  L  C  *  D  L  G  K  L  F  L  W  G  A  V  S  Y  N  C  I  C  I  Y  G  L  M  G  Q  C  F  Y  H  T  L  K  E  K  K  G  F </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39660" stop="40316"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>654</number_coding_nucleotides>
                  <number_encoded_amino_acids>218</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LRLRPHFSNFNERFCLTYSREMAELFGYTACRQLLQMFISIIFFHVSEYILALVFHGKSNVSFKSLLISKHYVLAMFCSLIEYLIEIYFFPGLKEYWWISNFGLAMVVLGEIIRKLAIVTAGQAFTHLIKVYHEENHQLVTNGIYRFVRHPGYCGFFIWSVGTQIMLCNPISTIAFTVVVWKFFSGRIPYEEFFLKQFFGSDYEDYMRKVPSGIPLVR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="38432" e_stop="38479"/>
            <exon e_start="38631" e_stop="38703"/>
            <exon e_start="39607" e_stop="40664"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.778" acc_prob="0.993" e_score="0.896"/>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.945"/>
          <exon-only e_score="0.997"/>
        </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="0.896">
            <gDNA_exon_boundary e_start="38432" e_stop="38479" e_length="48"/>
          </exon>
          <intron i_serial="1" don_prob="0.778" acc_prob="0.993">
            <gDNA_intron_boundary i_start="38480" i_stop="38630" i_length="151"/>
          </intron>
          <exon e_serial="2" e_score="0.945">
            <gDNA_exon_boundary e_start="38631" e_stop="38703" e_length="73"/>
          </exon>
          <intron i_serial="2" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="38704" i_stop="39606" i_length="903"/>
          </intron>
          <exon e_serial="3" e_score="0.997">
            <gDNA_exon_boundary e_start="39607" e_stop="40664" e_length="1058"/>
          </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="38432" stop="38479"/>
              <exon start="38631" stop="38703"/>
              <exon start="39607" stop="40021"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E367261" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39610" stop="40109"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324487" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39997" stop="40664"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E543262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40067" stop="40656"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548850" 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="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTCTCTTAATTAAAATAATTACCTCGCCTTCATCAGATCTGGTTGTT : GGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAG : GTTTGGAGTTGAAATTTGAAACATAGCGTATCATATTTTCAAGCCTTTGATGACTCAGACTGAGACCTCATTTTAGTAACTTTAACGAGAGGTTTTGTTTGACTTATTCGCGTGAAATGGCAGAGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGAAAGGCTTT</gDNA_template>
            <first_frame> F  L  L  I  K  I  I  T  S  P  S  S  D  L  V  V  :  G  *  A  A  F  A  C  V  H  L  D  *  F  M  G  *  L  I  V  *  L  T  G  T   : G  L  E  L  K  F  E  T  *  R  I  I  F  S  S  L  *  *  L  R  L  R  P  H  F  S  N  F  N  E  R  F  C  L  T  Y  S  R  E  M  A  E  L  F  G  Y  T  A  C  R  Q  L  L  Q  M  F  I  S  I  I  F  F  H  V  S  E  Y  I  L  A  L  V  F  H  G  K  S  N  V  S  F  K  S  L  L  I  S  K  H  Y  V  L  A  M  F  C  S  L  I  E  Y  L  I  E  I  Y  F  F  P  G  L  K  E  Y  W  W  I  S  N  F  G  L  A  M  V  V  L  G  E  I  I  R  K  L  A  I  V  T  A  G  Q  A  F  T  H  L  I  K  V  Y  H  E  E  N  H  Q  L  V  T  N  G  I  Y  R  F  V  R  H  P  G  Y  C  G  F  F  I  W  S  V  G  T  Q  I  M  L  C  N  P  I  S  T  I  A  F  T  V  V  V  W  K  F  F  S  G  R  I  P  Y  E  E  F  F  L  K  Q  F  F  G  S  D  Y  E  D  Y  M  R  K  V  P  S  G  I  P  L  V  R  *  L  Y  P  L  Q  C  S  I  Y  S  C  L  T  S  S  A  H  R  C  *  D  N  T  V  Y  E  F  Y  L  L  R  H  S  L  Q  F  S  *  H  E  V  R  Q  K  K  V  P  P  R  Y  N  F  *  G  D  A  S  I  N  P  C  I  A  R  L  S  Y  L  Y  H  H  V  F  V  V  S  C  L  C  *  D  L  G  K  L  F  L  W  G  A  V  S  Y  N  C  I  C  I  Y  G  L  M  G  Q  C  F  Y  H  T  L  K  E  K  K  G  F </first_frame>
            <second_frame>  F  S  *  L  K  *  L  P  R  L  H  Q  I  W  L  L :   V  E  P  P  L  L  V  C  I  S  I  N  L  W  G  S  L  S  S  S  S  Q  V  Q  :  V  W  S  *  N  L  K  H  S  V  S  Y  F  Q  A  F  D  D  S  D  *  D  L  I  L  V  T  L  T  R  G  F  V  *  L  I  R  V  K  W  Q  S  F  L  D  I  Q  H  A  D  N  Y  C  K  C  S  F  Q  L  Y  S  S  M  F  P  S  T  F  W  H  L  S  F  M  G  S  R  M  Y  L  L  S  R  F  *  *  A  N  I  M  Y  *  Q  C  F  A  P  *  *  N  T  L  L  K  S  I  S  F  P  A  *  R  N  I  G  G  *  V  I  L  A  S  Q  W  L  S  S  E  K  S  *  G  S  W  Q  L  *  Q  Q  A  K  P  S  L  I  *  *  R  F  I  M  R  K  I  I  S  W  L  R  M  G  S  I  D  L  S  G  I  P  V  T  V  V  S  S  S  G  L  L  V  H  K  *  C  Y  V  I  Q  Y  Q  P  L  H  S  Q  L  L  C  G  N  S  S  R  E  G  Y  L  T  R  S  F  S  S  S  S  S  L  V  L  T  T  K  I  I  *  E  K  F  L  L  V  F  H  L  *  G  D  Y  I  L  F  S  A  L  Y  I  H  A  *  R  H  L  L  I  G  A  E  I  T  L  F  M  N  F  I  F  L  D  T  L  Y  S  F  H  N  M  K  F  A  R  K  R  F  L  L  D  I  T  S  E  V  M  L  L  L  T  L  V  *  R  V  Y  L  I  C  I  I  M  F  S  S  Y  H  V  F  V  K  T  *  V  N  C  S  C  G  E  L  *  V  I  T  V  F  V  F  M  A  *  W  D  S  V  F  I  I  L  L  R  R  R  K  A   </second_frame>
            <third_frame>   S  L  N  *  N  N  Y  L  A  F  I  R  S  G  C   : W  L  S  R  L  C  L  C  A  S  R  L  I  Y  G  V  A  Y  R  L  A  H  R  Y  R :   F  G  V  E  I  *  N  I  A  Y  H  I  F  K  P  L  M  T  Q  T  E  T  S  F  *  *  L  *  R  E  V  L  F  D  L  F  A  *  N  G  R  A  F  W  I  Y  S  M  Q  T  I  I  A  N  V  H  F  N  Y  I  L  P  C  F  R  V  H  S  G  T  C  L  S  W  E  V  E  C  I  F  *  V  A  F  D  K  Q  T  L  C  T  S  N  V  L  L  L  D  R  I  P  Y  *  N  L  F  L  S  R  L  K  G  I  L  V  D  K  *  F  W  P  R  N  G  C  P  R  R  N  H  K  E  V  G  N  C  D  S  R  P  S  L  H  S  S  N  K  G  L  S  *  G  K  S  S  V  G  Y  E  W  D  L  *  I  C  P  A  S  R  L  L  W  F  L  H  L  V  C  W  Y  T  N  N  A  M  *  S  N  I  N  H  C  I  H  S  C  C  V  E  I  L  L  G  K  D  T  L  R  G  V  F  P  Q  A  V  L  W  F  *  L  R  R  L  Y  E  K  S  S  F  W  Y  S  T  C  E  V  I  I  S  S  S  V  L  Y  I  F  M  P  N  V  I  C  S  S  V  L  R  *  H  C  L  *  I  L  S  S  *  T  L  F  T  V  F  I  T  *  S  S  P  E  K  G  S  S  *  I  *  L  L  R  *  C  F  Y  *  P  L  Y  S  A  F  I  L  F  V  S  S  C  F  R  R  I  M  S  L  L  R  L  R  *  T  V  L  V  G  S  C  K  L  *  L  Y  L  Y  L  W  L  D  G  T  V  F  L  S  Y  S  *  G  E  E  R  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="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39660" stop="40316"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>654</number_coding_nucleotides>
                  <number_encoded_amino_acids>218</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LRLRPHFSNFNERFCLTYSREMAELFGYTACRQLLQMFISIIFFHVSEYILALVFHGKSNVSFKSLLISKHYVLAMFCSLIEYLIEIYFFPGLKEYWWISNFGLAMVVLGEIIRKLAIVTAGQAFTHLIKVYHEENHQLVTNGIYRFVRHPGYCGFFIWSVGTQIMLCNPISTIAFTVVVWKFFSGRIPYEEFFLKQFFGSDYEDYMRKVPSGIPLVR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="3">
          <exon_coordinates>
            <exon e_start="39527" e_stop="39606"/>
            <exon e_start="39730" e_stop="40664"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.548" acc_prob="0.731" e_score="1.000"/>
          <exon-only e_score="0.997"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="39527" e_stop="39606" e_length="80"/>
          </exon>
          <intron i_serial="1" don_prob="0.548" acc_prob="0.731">
            <gDNA_intron_boundary i_start="39607" i_stop="39729" i_length="123"/>
          </intron>
          <exon e_serial="2" e_score="0.997">
            <gDNA_exon_boundary e_start="39730" e_stop="40664" e_length="935"/>
          </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="39527" stop="39606"/>
              <exon start="39730" stop="40186"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E699136" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="39997" stop="40664"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E543262" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="40067" stop="40656"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E548850" 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="3" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTCATTCTTAAAGGATAGTTTCATTGATTCTGAAGCCCATTTTGTGGTGCTAATTGTACAGAGCTCATCAACATTTTCAG : AGCTTTTTGGATATACAGCATGCAGACAATTATTGCAAATGTTCATTTCAATTATATTCTTCCATGTTTCCGAGTACATTCTGGCACTTGTCTTTCATGGGAAGTCGAATGTATCTTTTAAGTCGCTTTTGATAAGCAAACATTATGTACTAGCAATGTTTTGCTCCTTGATAGAATACCTTATTGAAATCTATTTCTTTCCCGGCTTAAAGGAATATTGGTGGATAAGTAATTTTGGCCTCGCAATGGTTGTCCTCGGAGAAATCATAAGGAAGTTGGCAATTGTGACAGCAGGCCAAGCCTTCACTCATCTAATAAAGGTTTATCATGAGGAAAATCATCAGTTGGTTACGAATGGGATCTATAGATTTGTCCGGCATCCCGGTTACTGTGGTTTCTTCATCTGGTCTGTTGGTACACAAATAATGCTATGTAATCCAATATCAACCATTGCATTCACAGTTGTTGTGTGGAAATTCTTCTCGGGAAGGATACCTTACGAGGAGTTTTTCCTCAAGCAGTTCTTTGGTTCTGACTACGAAGATTATATGAGAAAAGTTCCTTCTGGTATTCCACTTGTGAGGTGATTATATCCTCTTCAGTGCTCTATATATTCATGCCTAACGTCATCTGCTCATCGGTGCTGAGATAACACTGTTTATGAATTTTATCTTCTTAGACACTCTTTACAGTTTTCATAACATGAAGTTCGCCAGAAAAAGGTTCCTCCTAGATATAACTTCTGAGGTGATGCTTCTATTAACCCTTGTATAGCGCGTTTATCTTATTTGTATCATCATGTTTTCGTCGTATCATGTCTTTGTTAAGACTTAGGTAAACTGTTCTTGTGGGGAGCTGTAAGTTATAACTGTATTTGTATTTATGGCTTGATGGGACAGTGTTTTTATCATACTCTTAAGGAGAAGAAAGGCTTT</gDNA_template>
            <first_frame> V  I  L  K  G  *  F  H  *  F  *  S  P  F  C  G  A  N  C  T  E  L  I  N  I  F  R :   A  F  W  I  Y  S  M  Q  T  I  I  A  N  V  H  F  N  Y  I  L  P  C  F  R  V  H  S  G  T  C  L  S  W  E  V  E  C  I  F  *  V  A  F  D  K  Q  T  L  C  T  S  N  V  L  L  L  D  R  I  P  Y  *  N  L  F  L  S  R  L  K  G  I  L  V  D  K  *  F  W  P  R  N  G  C  P  R  R  N  H  K  E  V  G  N  C  D  S  R  P  S  L  H  S  S  N  K  G  L  S  *  G  K  S  S  V  G  Y  E  W  D  L  *  I  C  P  A  S  R  L  L  W  F  L  H  L  V  C  W  Y  T  N  N  A  M  *  S  N  I  N  H  C  I  H  S  C  C  V  E  I  L  L  G  K  D  T  L  R  G  V  F  P  Q  A  V  L  W  F  *  L  R  R  L  Y  E  K  S  S  F  W  Y  S  T  C  E  V  I  I  S  S  S  V  L  Y  I  F  M  P  N  V  I  C  S  S  V  L  R  *  H  C  L  *  I  L  S  S  *  T  L  F  T  V  F  I  T  *  S  S  P  E  K  G  S  S  *  I  *  L  L  R  *  C  F  Y  *  P  L  Y  S  A  F  I  L  F  V  S  S  C  F  R  R  I  M  S  L  L  R  L  R  *  T  V  L  V  G  S  C  K  L  *  L  Y  L  Y  L  W  L  D  G  T  V  F  L  S  Y  S  *  G  E  E  R  L  </first_frame>
            <second_frame>  S  F  L  K  D  S  F  I  D  S  E  A  H  F  V  V  L  I  V  Q  S  S  S  T  F  S   : E  L  F  G  Y  T  A  C  R  Q  L  L  Q  M  F  I  S  I  I  F  F  H  V  S  E  Y  I  L  A  L  V  F  H  G  K  S  N  V  S  F  K  S  L  L  I  S  K  H  Y  V  L  A  M  F  C  S  L  I  E  Y  L  I  E  I  Y  F  F  P  G  L  K  E  Y  W  W  I  S  N  F  G  L  A  M  V  V  L  G  E  I  I  R  K  L  A  I  V  T  A  G  Q  A  F  T  H  L  I  K  V  Y  H  E  E  N  H  Q  L  V  T  N  G  I  Y  R  F  V  R  H  P  G  Y  C  G  F  F  I  W  S  V  G  T  Q  I  M  L  C  N  P  I  S  T  I  A  F  T  V  V  V  W  K  F  F  S  G  R  I  P  Y  E  E  F  F  L  K  Q  F  F  G  S  D  Y  E  D  Y  M  R  K  V  P  S  G  I  P  L  V  R  *  L  Y  P  L  Q  C  S  I  Y  S  C  L  T  S  S  A  H  R  C  *  D  N  T  V  Y  E  F  Y  L  L  R  H  S  L  Q  F  S  *  H  E  V  R  Q  K  K  V  P  P  R  Y  N  F  *  G  D  A  S  I  N  P  C  I  A  R  L  S  Y  L  Y  H  H  V  F  V  V  S  C  L  C  *  D  L  G  K  L  F  L  W  G  A  V  S  Y  N  C  I  C  I  Y  G  L  M  G  Q  C  F  Y  H  T  L  K  E  K  K  G  F </second_frame>
            <third_frame>   H  S  *  R  I  V  S  L  I  L  K  P  I  L  W  C  *  L  Y  R  A  H  Q  H  F  Q  :  S  F  L  D  I  Q  H  A  D  N  Y  C  K  C  S  F  Q  L  Y  S  S  M  F  P  S  T  F  W  H  L  S  F  M  G  S  R  M  Y  L  L  S  R  F  *  *  A  N  I  M  Y  *  Q  C  F  A  P  *  *  N  T  L  L  K  S  I  S  F  P  A  *  R  N  I  G  G  *  V  I  L  A  S  Q  W  L  S  S  E  K  S  *  G  S  W  Q  L  *  Q  Q  A  K  P  S  L  I  *  *  R  F  I  M  R  K  I  I  S  W  L  R  M  G  S  I  D  L  S  G  I  P  V  T  V  V  S  S  S  G  L  L  V  H  K  *  C  Y  V  I  Q  Y  Q  P  L  H  S  Q  L  L  C  G  N  S  S  R  E  G  Y  L  T  R  S  F  S  S  S  S  S  L  V  L  T  T  K  I  I  *  E  K  F  L  L  V  F  H  L  *  G  D  Y  I  L  F  S  A  L  Y  I  H  A  *  R  H  L  L  I  G  A  E  I  T  L  F  M  N  F  I  F  L  D  T  L  Y  S  F  H  N  M  K  F  A  R  K  R  F  L  L  D  I  T  S  E  V  M  L  L  L  T  L  V  *  R  V  Y  L  I  C  I  I  M  F  S  S  Y  H  V  F  V  K  T  *  V  N  C  S  C  G  E  L  *  V  I  T  V  F  V  F  M  A  *  W  D  S  V  F  I  I  L  L  R  R  R  K  A   </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="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="3" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="39528" stop="39606"/>
                    <exon start="39730" stop="40316"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>663</number_coding_nucleotides>
                  <number_encoded_amino_acids>221</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SFLKDSFIDSEAHFVVLIVQSSSTFSELFGYTACRQLLQMFISIIFFHVSEYILALVFHGKSNVSFKSLLISKHYVLAMFCSLIEYLIEIYFFPGLKEYWWISNFGLAMVVLGEIIRKLAIVTAGQAFTHLIKVYHEENHQLVTNGIYRFVRHPGYCGFFIWSVGTQIMLCNPISTIAFTVVVWKFFSGRIPYEEFFLKQFFGSDYEDYMRKVPSGIPLVR*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="4">
          <exon_coordinates>
            <exon e_start="38537" e_stop="39331"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.994"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.994">
            <gDNA_exon_boundary e_start="38537" e_stop="39331" e_length="795"/>
          </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="38537" stop="39331"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E316439" 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="4" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TTTTATTTTGTGCATCTTCGGTATGTTTTCGTATTTGAATGAACTGAATTTGTTGTTTTCTGTTTTTGTTTCTGTTCTTCTTTTGTGGATTTAGGGTTGAGCCGCCTTTGCTTGTGTGCATCTCGATTAATTTATGGGGTAGCTTATCGTCTAGCTCACAGGTACAGGTTCAGTTTAGTGTTGCTGCTGATACTCGAACTGGGGATTTTTCAGTTTTTTTTTCAACTCACTAGGTCATTCCCTTGGGCGGGGTGAATTTTATAGGGCAATTTATGGTGTTCGTGAACCTATGGTATATCTATCAACTTAGATATTTTGGGTAGATACTCCGTTGAATTAATCTAATATTATCTGTTGACATTGATGCTACAAAAAAAGAAGCTTAAATGGTGCACTTGATGCTAAAAAAAAGTTCGTTGTTTTAATGGTGCAGCGATGTTATAAAAATTCTATATCTTCATCTGCCATTGTGGACTCATGATAGAACTCAATTTTCGAGTCATTTACTAAATGATACTGATGATATCTGTGCTGTAGATGTTGATTTCTAGGATAACTTTTTTATTAAGTTGCTTTTATCTCAATTAGTTCGTTAAAGAATGTGATAGTTAAATAGTTAATAACTTGTTATTTTTCATGATTTAGTGATGGGAGTGTTAAATCACAAGTTATCAAGTGTAGTGAAAATGTGCCTGAATCCGGTTAGTTTGGATAGGTGTTATGTTGATTGATTGATTTTTACTTTATTAGAGAGTCCAATATCTAAAAGCTCTGTATTGACCCCAAAATCCCATT</gDNA_template>
            <first_frame> F  Y  F  V  H  L  R  Y  V  F  V  F  E  *  T  E  F  V  V  F  C  F  C  F  C  S  S  F  V  D  L  G  L  S  R  L  C  L  C  A  S  R  L  I  Y  G  V  A  Y  R  L  A  H  R  Y  R  F  S  L  V  L  L  L  I  L  E  L  G  I  F  Q  F  F  F  Q  L  T  R  S  F  P  W  A  G  *  I  L  *  G  N  L  W  C  S  *  T  Y  G  I  S  I  N  L  D  I  L  G  R  Y  S  V  E  L  I  *  Y  Y  L  L  T  L  M  L  Q  K  K  K  L  K  W  C  T  *  C  *  K  K  V  R  C  F  N  G  A  A  M  L  *  K  F  Y  I  F  I  C  H  C  G  L  M  I  E  L  N  F  R  V  I  Y  *  M  I  L  M  I  S  V  L  *  M  L  I  S  R  I  T  F  L  L  S  C  F  Y  L  N  *  F  V  K  E  C  D  S  *  I  V  N  N  L  L  F  F  M  I  *  *  W  E  C  *  I  T  S  Y  Q  V  *  *  K  C  A  *  I  R  L  V  W  I  G  V  M  L  I  D  *  F  L  L  Y  *  R  V  Q  Y  L  K  A  L  Y  *  P  Q  N  P  I </first_frame>
            <second_frame>  F  I  L  C  I  F  G  M  F  S  Y  L  N  E  L  N  L  L  F  S  V  F  V  S  V  L  L  L  W  I  *  G  *  A  A  F  A  C  V  H  L  D  *  F  M  G  *  L  I  V  *  L  T  G  T  G  S  V  *  C  C  C  *  Y  S  N  W  G  F  F  S  F  F  F  N  S  L  G  H  S  L  G  R  G  E  F  Y  R  A  I  Y  G  V  R  E  P  M  V  Y  L  S  T  *  I  F  W  V  D  T  P  L  N  *  S  N  I  I  C  *  H  *  C  Y  K  K  R  S  L  N  G  A  L  D  A  K  K  K  F  V  V  L  M  V  Q  R  C  Y  K  N  S  I  S  S  S  A  I  V  D  S  *  *  N  S  I  F  E  S  F  T  K  *  Y  *  *  Y  L  C  C  R  C  *  F  L  G  *  L  F  Y  *  V  A  F  I  S  I  S  S  L  K  N  V  I  V  K  *  L  I  T  C  Y  F  S  *  F  S  D  G  S  V  K  S  Q  V  I  K  C  S  E  N  V  P  E  S  G  *  F  G  *  V  L  C  *  L  I  D  F  Y  F  I  R  E  S  N  I  *  K  L  C  I  D  P  K  I  P   </second_frame>
            <third_frame>   L  F  C  A  S  S  V  C  F  R  I  *  M  N  *  I  C  C  F  L  F  L  F  L  F  F  F  C  G  F  R  V  E  P  P  L  L  V  C  I  S  I  N  L  W  G  S  L  S  S  S  S  Q  V  Q  V  Q  F  S  V  A  A  D  T  R  T  G  D  F  S  V  F  F  S  T  H  *  V  I  P  L  G  G  V  N  F  I  G  Q  F  M  V  F  V  N  L  W  Y  I  Y  Q  L  R  Y  F  G  *  I  L  R  *  I  N  L  I  L  S  V  D  I  D  A  T  K  K  E  A  *  M  V  H  L  M  L  K  K  S  S  L  F  *  W  C  S  D  V  I  K  I  L  Y  L  H  L  P  L  W  T  H  D  R  T  Q  F  S  S  H  L  L  N  D  T  D  D  I  C  A  V  D  V  D  F  *  D  N  F  F  I  K  L  L  L  S  Q  L  V  R  *  R  M  *  *  L  N  S  *  *  L  V  I  F  H  D  L  V  M  G  V  L  N  H  K  L  S  S  V  V  K  M  C  L  N  P  V  S  L  D  R  C  Y  V  D  *  L  I  F  T  L  L  E  S  P  I  S  K  S  S  V  L  T  P  K  S  H  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="4" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="38579" stop="38791"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>210</number_coding_nucleotides>
                  <number_encoded_amino_acids>70</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TEFVVFCFCFCSSFVDLGLSRLCLCASRLIYGVAYRLAHRYRFSLVLLLILELGIFQFFFQLTRSFPWAG*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="+" PGL_start="44394" PGL_stop="49565"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="44394" e_stop="44670"/>
            <exon e_start="46529" e_stop="46581"/>
            <exon e_start="47669" e_stop="47804"/>
            <exon e_start="48683" e_stop="48858"/>
            <exon e_start="48946" e_stop="49107"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.893" acc_prob="0.609" e_score="1.000"/>
          <exon-intron don_prob="0.991" acc_prob="0.790" e_score="1.000"/>
          <exon-intron don_prob="0.995" acc_prob="0.846" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.950" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="44394" e_stop="44670" e_length="277"/>
          </exon>
          <intron i_serial="1" don_prob="0.893" acc_prob="0.609">
            <gDNA_intron_boundary i_start="44671" i_stop="46528" i_length="1858"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="46529" e_stop="46581" e_length="53"/>
          </exon>
          <intron i_serial="2" don_prob="0.991" acc_prob="0.790">
            <gDNA_intron_boundary i_start="46582" i_stop="47668" i_length="1087"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="47669" e_stop="47804" e_length="136"/>
          </exon>
          <intron i_serial="3" don_prob="0.995" acc_prob="0.846">
            <gDNA_intron_boundary i_start="47805" i_stop="48682" i_length="878"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="48683" e_stop="48858" e_length="176"/>
          </exon>
          <intron i_serial="4" don_prob="0.997" acc_prob="0.950">
            <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87"/>
          </intron>
          <exon e_serial="5" e_score="1.000">
            <gDNA_exon_boundary e_start="48946" e_stop="49107" e_length="162"/>
          </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="44394" stop="44670"/>
              <exon start="46529" stop="46581"/>
              <exon start="47669" stop="47804"/>
              <exon start="48683" stop="48858"/>
              <exon start="48946" stop="49107"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538938" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="44394" stop="44670"/>
              <exon start="46529" stop="46581"/>
              <exon start="47669" stop="47804"/>
              <exon start="48683" stop="48858"/>
              <exon start="48946" stop="49069"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538856" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="44395" stop="44670"/>
              <exon start="46529" stop="46581"/>
              <exon start="47669" stop="47804"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E278841" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="44447" stop="44670"/>
              <exon start="46529" stop="46581"/>
              <exon start="47669" stop="47804"/>
              <exon start="48683" stop="48744"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E398108" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>TAGGCCGAATCCATCTCAATTTTCTTTTCTTCTGATGAAAATTAAGAATGTTGAGTGGGTCTCGGTGTAATTTTCATTGCAGTGCTCACCAATTTGCCACCATTTTAGCTGCTTCTACACTGACCTCAGAATCTTCTTTCAAAAATTTTAGAATCAGATTGAGGAGCAGGAACAGTAATAGTTCTTGTTTGAGCAATAAAGTTTGTGATTTTGGGGTCAATTGTGTTCAACCCAAATCTTCAGATACCCAAAGCTCTTTGCTTTCTGAAACTTTGAG : CCAATCTGGAACAGATGAGGAGCCTCCATCAGAAAGATTGCCAATTCTTACAG : GCGGGATAGTAGCTCTGGGGAAATTTGATGCACTCCATATTGGTCACCGCGAGCTTGCAATTCAAGCAGCAAAGAGAGGAATTCCATTTCTTCTTTCATTTGTTGGGATGGCGGAAGTACTTGGATGGGAACCAAG : GGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG : GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAG</gDNA_template>
            <first_frame> *  A  E  S  I  S  I  F  F  S  S  D  E  N  *  E  C  *  V  G  L  G  V  I  F  I  A  V  L  T  N  L  P  P  F  *  L  L  L  H  *  P  Q  N  L  L  S  K  I  L  E  S  D  *  G  A  G  T  V  I  V  L  V  *  A  I  K  F  V  I  L  G  S  I  V  F  N  P  N  L  Q  I  P  K  A  L  C  F  L  K  L  *   : A  N  L  E  Q  M  R  S  L  H  Q  K  D  C  Q  F  L  Q  :  A  G  *  *  L  W  G  N  L  M  H  S  I  L  V  T  A  S  L  Q  F  K  Q  Q  R  E  E  F  H  F  F  F  H  L  L  G  W  R  K  Y  L  D  G  N  Q   : G  L  P  L  L  L  N  V  I  A  K  G  F  F  R  L  G  L  L  I  A  V  V  *  C  Q  G  N  S  R  *  I  F  R  K  F  D  I  L  R  L  V  S  L  W  R  S  F  P  K  S  W  E  Y  E  E  L  L  L  :  A  R  I  I  V  L  D  I  E  L  L  V  M  H  Q  T  L  *  S  S  V  R  S  M  D  *  R  L  I  *  S  I  L  S  W  T  Q  I  K  F  L  E  T  *  T  L  K  T  V  K  R  E  G  K </first_frame>
            <second_frame>  R  P  N  P  S  Q  F  S  F  L  L  M  K  I  K  N  V  E  W  V  S  V  *  F  S  L  Q  C  S  P  I  C  H  H  F  S  C  F  Y  T  D  L  R  I  F  F  Q  K  F  *  N  Q  I  E  E  Q  E  Q  *  *  F  L  F  E  Q  *  S  L  *  F  W  G  Q  L  C  S  T  Q  I  F  R  Y  P  K  L  F  A  F  *  N  F  E  :  P  I  W  N  R  *  G  A  S  I  R  K  I  A  N  S  Y  R :   R  D  S  S  S  G  E  I  *  C  T  P  Y  W  S  P  R  A  C  N  S  S  S  K  E  R  N  S  I  S  S  F  I  C  W  D  G  G  S  T  W  M  G  T  K  :  G  S  H  C  C  *  M  *  S  Q  K  D  S  F  V  L  G  S  L  L  R  *  Y  N  A  K  G  T  P  D  R  F  F  E  S  S  I  S  Y  A  L  S  V  C  G  E  A  F  Q  R  A  G  S  T  R  S  C  C  W :   R  E  L  S  F  W  I  *  S  C  W  *  C  I  R  P  C  E  A  L  *  G  V  W  I  R  G  L  Y  N  Q  F  C  H  G  H  K  S  N  F  W  R  L  E  L  *  R  R  *  R  E  R  A   </second_frame>
            <third_frame>   G  R  I  H  L  N  F  L  F  F  *  *  K  L  R  M  L  S  G  S  R  C  N  F  H  C  S  A  H  Q  F  A  T  I  L  A  A  S  T  L  T  S  E  S  S  F  K  N  F  R  I  R  L  R  S  R  N  S  N  S  S  C  L  S  N  K  V  C  D  F  G  V  N  C  V  Q  P  K  S  S  D  T  Q  S  S  L  L  S  E  T  L  S :   Q  S  G  T  D  E  E  P  P  S  E  R  L  P  I  L  T   : G  G  I  V  A  L  G  K  F  D  A  L  H  I  G  H  R  E  L  A  I  Q  A  A  K  R  G  I  P  F  L  L  S  F  V  G  M  A  E  V  L  G  W  E  P  R :   A  P  I  V  A  E  C  D  R  K  R  I  L  S  S  W  A  P  Y  C  G  S  I  M  P  R  E  L  Q  I  D  F  S  K  V  R  Y  L  T  P  C  Q  F  V  E  K  L  S  K  E  L  G  V  R  G  V  V  A   : G  E  N  Y  R  F  G  Y  R  A  A  G  D  A  S  D  L  V  K  L  C  E  E  Y  G  L  E  A  Y  I  I  N  S  V  M  D  T  N  Q  I  S  G  D  L  N  S  K  D  G  K  E  R  G  Q  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="44432" stop="44670"/>
                    <exon start="46529" stop="46581"/>
                    <exon start="47669" stop="47804"/>
                    <exon start="48683" stop="48858"/>
                    <exon start="48946" stop="49106"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>765</number_coding_nucleotides>
                  <number_encoded_amino_acids>255</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>KLRMLSGSRCNFHCSAHQFATILAASTLTSESSFKNFRIRLRSRNSNSSCLSNKVCDFGVNCVQPKSSDTQSSLLSETLSQSGTDEEPPSERLPILTGGIVALGKFDALHIGHRELAIQAAKRGIPFLLSFVGMAEVLGWEPRAPIVAECDRKRILSSWAPYCGSIMPRELQIDFSKVRYLTPCQFVEKLSKELGVRGVVAGENYRFGYRAAGDASDLVKLCEEYGLEAYIINSVMDTNQISGDLNSKDGKERGQ</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="48678" e_stop="48858"/>
            <exon e_start="48946" e_stop="49565"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.950" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="48678" e_stop="48858" e_length="181"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.950">
            <gDNA_intron_boundary i_start="48859" i_stop="48945" i_length="87"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="48946" e_stop="49565" e_length="620"/>
          </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="48678" stop="48858"/>
              <exon start="48946" stop="49550"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538853" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="48682" stop="48858"/>
              <exon start="48946" stop="49565"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E538936" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CCCAGGGCTCCCATTGTTGCTGAATGTGATCGCAAAAGGATTCTTTCGTCTTGGGCTCCTTATTGCGGTAGTATAATGCCAAGGGAACTCCAGATAGATTTTTCGAAAGTTCGATATCTTACGCCTTGTCAGTTTGTGGAGAAGCTTTCCAAAGAGCTGGGAGTACGAGGAGTTGTTGCTG : GCGAGAATTATCGTTTTGGATATAGAGCTGCTGGTGATGCATCAGACCTTGTGAAGCTCTGTGAGGAGTATGGATTAGAGGCTTATATAATCAATTCTGTCATGGACACAAATCAAATTTCTGGAGACTTGAACTCTAAAGACGGTAAAGAGAGAGGGCAAGTATCATCTACTCGTGTTAGGTATGCCCTTCACAAGGGAGACATGAAATATGTGTCAGAGCTATTAGGTCGGAACCATCGTCTTATTTTAATGATGGAAGACCAAGAAAGGTTTACTAGTGAGAGAAATAGGCTGTCTGCTCCAAAGTCTTGTTTGTTGAATCTTGCACCTAAGGAAGGTCTTTATGAGAATTGTTCAGTTTTGATTGACAAGAGTGTTATTCCCTGCAGAGTAATAGTTGATACAACATATATTCATTTGGAATCCTATGAGGTAGCTAGTTTTTCCTGTGTTACTTCTCAAGACTTAAAGATATTGGGTATTGACTTTGGCAGTCCAAAGTTAGAAGGGGTTCAAATTTTGTAATTCATTCCCGATAATTTGTTAGTGCAACCATTTCTGAATGTCCTTCAGTGTTTAAGTATGAGTATGATTTTTTAAGCGGTACCTTTCTGCTAA</gDNA_template>
            <first_frame> P  R  A  P  I  V  A  E  C  D  R  K  R  I  L  S  S  W  A  P  Y  C  G  S  I  M  P  R  E  L  Q  I  D  F  S  K  V  R  Y  L  T  P  C  Q  F  V  E  K  L  S  K  E  L  G  V  R  G  V  V  A   : G  E  N  Y  R  F  G  Y  R  A  A  G  D  A  S  D  L  V  K  L  C  E  E  Y  G  L  E  A  Y  I  I  N  S  V  M  D  T  N  Q  I  S  G  D  L  N  S  K  D  G  K  E  R  G  Q  V  S  S  T  R  V  R  Y  A  L  H  K  G  D  M  K  Y  V  S  E  L  L  G  R  N  H  R  L  I  L  M  M  E  D  Q  E  R  F  T  S  E  R  N  R  L  S  A  P  K  S  C  L  L  N  L  A  P  K  E  G  L  Y  E  N  C  S  V  L  I  D  K  S  V  I  P  C  R  V  I  V  D  T  T  Y  I  H  L  E  S  Y  E  V  A  S  F  S  C  V  T  S  Q  D  L  K  I  L  G  I  D  F  G  S  P  K  L  E  G  V  Q  I  L  *  F  I  P  D  N  L  L  V  Q  P  F  L  N  V  L  Q  C  L  S  M  S  M  I  F  *  A  V  P  F  C  * </first_frame>
            <second_frame>  P  G  L  P  L  L  L  N  V  I  A  K  G  F  F  R  L  G  L  L  I  A  V  V  *  C  Q  G  N  S  R  *  I  F  R  K  F  D  I  L  R  L  V  S  L  W  R  S  F  P  K  S  W  E  Y  E  E  L  L  L  :  A  R  I  I  V  L  D  I  E  L  L  V  M  H  Q  T  L  *  S  S  V  R  S  M  D  *  R  L  I  *  S  I  L  S  W  T  Q  I  K  F  L  E  T  *  T  L  K  T  V  K  R  E  G  K  Y  H  L  L  V  L  G  M  P  F  T  R  E  T  *  N  M  C  Q  S  Y  *  V  G  T  I  V  L  F  *  *  W  K  T  K  K  G  L  L  V  R  E  I  G  C  L  L  Q  S  L  V  C  *  I  L  H  L  R  K  V  F  M  R  I  V  Q  F  *  L  T  R  V  L  F  P  A  E  *  *  L  I  Q  H  I  F  I  W  N  P  M  R  *  L  V  F  P  V  L  L  L  K  T  *  R  Y  W  V  L  T  L  A  V  Q  S  *  K  G  F  K  F  C  N  S  F  P  I  I  C  *  C  N  H  F  *  M  S  F  S  V  *  V  *  V  *  F  F  K  R  Y  L  S  A   </second_frame>
            <third_frame>   Q  G  S  H  C  C  *  M  *  S  Q  K  D  S  F  V  L  G  S  L  L  R  *  Y  N  A  K  G  T  P  D  R  F  F  E  S  S  I  S  Y  A  L  S  V  C  G  E  A  F  Q  R  A  G  S  T  R  S  C  C  W :   R  E  L  S  F  W  I  *  S  C  W  *  C  I  R  P  C  E  A  L  *  G  V  W  I  R  G  L  Y  N  Q  F  C  H  G  H  K  S  N  F  W  R  L  E  L  *  R  R  *  R  E  R  A  S  I  I  Y  S  C  *  V  C  P  S  Q  G  R  H  E  I  C  V  R  A  I  R  S  E  P  S  S  Y  F  N  D  G  R  P  R  K  V  Y  *  *  E  K  *  A  V  C  S  K  V  L  F  V  E  S  C  T  *  G  R  S  L  *  E  L  F  S  F  D  *  Q  E  C  Y  S  L  Q  S  N  S  *  Y  N  I  Y  S  F  G  I  L  *  G  S  *  F  F  L  C  Y  F  S  R  L  K  D  I  G  Y  *  L  W  Q  S  K  V  R  R  G  S  N  F  V  I  H  S  R  *  F  V  S  A  T  I  S  E  C  P  S  V  F  K  Y  E  Y  D  F  L  S  G  T  F  L  L  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="7" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48678" stop="48858"/>
                    <exon start="48946" stop="49472"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>705</number_coding_nucleotides>
                  <number_encoded_amino_acids>235</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>PRAPIVAECDRKRILSSWAPYCGSIMPRELQIDFSKVRYLTPCQFVEKLSKELGVRGVVAGENYRFGYRAAGDASDLVKLCEEYGLEAYIINSVMDTNQISGDLNSKDGKERGQVSSTRVRYALHKGDMKYVSELLGRNHRLILMMEDQERFTSERNRLSAPKSCLLNLAPKEGLYENCSVLIDKSVIPCRVIVDTTYIHLESYEVASFSCVTSQDLKILGIDFGSPKLEGVQIL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="49579" PGL_stop="49027"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="49579" e_stop="49027"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="49579" e_stop="49027" e_length="553"/>
          </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="49579" stop="49092"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E394242" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49578" stop="49027"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E202378" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="49578" stop="49033"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E210078" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AAAAGAATGTGAATTTAGCAGAAAGGTACCGCTTAAAAAATCATACTCATACTTAAACACTGAAGGACATTCAGAAATGGTTGCACTAACAAATTATCGGGAATGAATTACAAAATTTGAACCCCTTCTAACTTTGGACTGCCAAAGTCAATACCCAATATCTTTAAGTCTTGAGAAGTAACACAGGAAAAACTAGCTACCTCATAGGATTCCAAATGAATATATGTTGTATCAACTATTACTCTGCAGGGAATAACACTCTTGTCAATCAAAACTGAACAATTCTCATAAAGACCTTCCTTAGGTGCAAGATTCAACAAACAAGACTTTGGAGCAGACAGCCTATTTCTCTCACTAGTAAACCTTTCTTGGTCTTCCATCATTAAAATAAGACGATGGTTCCGACCTAATAGCTCTGACACATATTTCATGTCTCCCTTGTGAAGGGCATACCTAACACGAGTAGATGATACTTGCCCTCTCTCTTTACCGTCTTTAGAGTTCAAGTCTCCAGAAATTTGATTTGTGTCCATGACAGAATTGATTATATAAG</gDNA_template>
            <first_frame> K  R  M  *  I  *  Q  K  G  T  A  *  K  I  I  L  I  L  K  H  *  R  T  F  R  N  G  C  T  N  K  L  S  G  M  N  Y  K  I  *  T  P  S  N  F  G  L  P  K  S  I  P  N  I  F  K  S  *  E  V  T  Q  E  K  L  A  T  S  *  D  S  K  *  I  Y  V  V  S  T  I  T  L  Q  G  I  T  L  L  S  I  K  T  E  Q  F  S  *  R  P  S  L  G  A  R  F  N  K  Q  D  F  G  A  D  S  L  F  L  S  L  V  N  L  S  W  S  S  I  I  K  I  R  R  W  F  R  P  N  S  S  D  T  Y  F  M  S  P  L  *  R  A  Y  L  T  R  V  D  D  T  C  P  L  S  L  P  S  L  E  F  K  S  P  E  I  *  F  V  S  M  T  E  L  I  I  *  </first_frame>
            <second_frame>  K  E  C  E  F  S  R  K  V  P  L  K  K  S  Y  S  Y  L  N  T  E  G  H  S  E  M  V  A  L  T  N  Y  R  E  *  I  T  K  F  E  P  L  L  T  L  D  C  Q  S  Q  Y  P  I  S  L  S  L  E  K  *  H  R  K  N  *  L  P  H  R  I  P  N  E  Y  M  L  Y  Q  L  L  L  C  R  E  *  H  S  C  Q  S  K  L  N  N  S  H  K  D  L  P  *  V  Q  D  S  T  N  K  T  L  E  Q  T  A  Y  F  S  H  *  *  T  F  L  G  L  P  S  L  K  *  D  D  G  S  D  L  I  A  L  T  H  I  S  C  L  P  C  E  G  H  T  *  H  E  *  M  I  L  A  L  S  L  Y  R  L  *  S  S  S  L  Q  K  F  D  L  C  P  *  Q  N  *  L  Y  K </second_frame>
            <third_frame>   K  N  V  N  L  A  E  R  Y  R  L  K  N  H  T  H  T  *  T  L  K  D  I  Q  K  W  L  H  *  Q  I  I  G  N  E  L  Q  N  L  N  P  F  *  L  W  T  A  K  V  N  T  Q  Y  L  *  V  L  R  S  N  T  G  K  T  S  Y  L  I  G  F  Q  M  N  I  C  C  I  N  Y  Y  S  A  G  N  N  T  L  V  N  Q  N  *  T  I  L  I  K  T  F  L  R  C  K  I  Q  Q  T  R  L  W  S  R  Q  P  I  S  L  T  S  K  P  F  L  V  F  H  H  *  N  K  T  M  V  P  T  *  *  L  *  H  I  F  H  V  S  L  V  K  G  I  P  N  T  S  R  *  Y  L  P  S  L  F  T  V  F  R  V  Q  V  S  R  N  L  I  C  V  H  D  R  I  D  Y  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0332P16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="+" PGL_start="53345" PGL_stop="55706"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="53345" e_stop="53771"/>
            <exon e_start="54476" e_stop="55706"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.962" e_score="1.000"/>
          <exon-only e_score="0.993"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="53345" e_stop="53771" e_length="427"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.962">
            <gDNA_intron_boundary i_start="53772" i_stop="54475" i_length="704"/>
          </intron>
          <exon e_serial="2" e_score="0.993">
            <gDNA_exon_boundary e_start="54476" e_stop="55706" e_length="1231"/>
          </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="53345" stop="53771"/>
              <exon start="54476" stop="54901"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E704866" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53352" stop="53771"/>
              <exon start="54476" stop="54919"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703110" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53352" stop="53771"/>
              <exon start="54476" stop="54912"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E703536" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53352" stop="53771"/>
              <exon start="54476" stop="54814"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E709037" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53359" stop="53771"/>
              <exon start="54476" stop="54820"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E697542" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="53382" stop="53771"/>
              <exon start="54476" stop="54802"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E690306" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54559" stop="55075"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E304341" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54600" stop="55151"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E698288" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54772" stop="55677"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E701555" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54927" stop="55510"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E354209" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55162" stop="55706"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715163" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55162" stop="55706"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E715165" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55192" stop="55659"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239235" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="55201" stop="55659"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E239171" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>ATGAAAAGATAACTTCTCTTTCTTTCCAGTATAAGATCAGAACCATAAACTTCTCCGATGGCCGGCGCCGGCGACGATTCTCATCTGCAGAACGACGTCGTTTCAGTCCACTGTATAAACGACAGTCTCGGCGACGATGAGCTTCGGGCCGTACTGTCGAGACTTGGAGACGACAAAGACAAGGAAGTTTTCGGGCTGGTATGTAAGCGGTGGCTTCGTATTCAAAGTACTGAAAGGAAGAAGCTTTGTGCTCGGGCCGGGCCTCACATGCTCAGAAGAATCGCGTCCCGATTCACTCGATTACATGAGCTTGATCTATCTCAATCGGTTTCTAGATCTTTCTATCCTGGTGTTACTGATTCTGATCTTTCAGTTATTGCTACTGCTTTCTCTTGCTTGCGAATTCTCAATCTGCAGAACTGTAAAG : GCATAACAGACAAAGGATTGGCTGCTATTGGATCAAGTCTGTCTTCTTTACAGTCCTTAGATGTATCCTACTGCAGAAAGATCACTGACAAGGGGCTTTCAGCTGTTGCTGAGGGGTGTCATGACTTGAGAATATTGCATCTTTCTGGCTGTAGATTTGTCTCAGATTCATTAATGAAAGCTCTCTCCGAGAATTGCCATAATGTGGAAGAGATAGGTTTGCAAGGATGCACCAACATTACCAACTCAGGTCTCTCTGTTATGGTTGAAGGTTGCCGGAGGATAAAGCATTTGGACATTAACAAATGCATCAATATTGGTGATATTGGGATATCTAGTGTGTCTGAAGCTTGTTCATTGACACTCATGACATTGAAGTTGTTGGATTGCTATAAAGTTGGTGATGACTCTATCTTATCCTTGGCCAACCACTGCAAAAATCTTGAGACACTCGTTATTGGTGGTTGCCGTAACATATCAGATGAGTCCATGAAGTCACTGGCAGCTTCTTGTAGTAATAGTCTGAGGAAACTGAGGATGGATTGGTGCTTGAATATTACAGACTCTTCATTGGACTGCATCCTTTCCAAATGCAGAGAGCTTGAGGTTCTCGACATTGGCTGCTGTGAGGAGTTAACTGATGCTGCATTTCAACAATTAGGAAGTGACAACTTTATGTTGGGGATGAAGATTTTGAAGGTCAGTAACTGTCCAAAGATCACTGTTGAAGGAATTAAGAAGCTTATGAAGTCATGCAAATTTCTTGAATATCTAGACGTACGATCTTGTCCCCTTATCACTAAAGCAGGGTGTGAGGAGGCTGGAATTCAGTTTCCTGAATCCTGCAAAATAAACTTCACTGGAAGCTTAGCAGAGCCAGATGTGTTACTTTGAGCAGTACTTGTTTTAGCAATGTCTTTGAAGGCCTGATGGGGATCATACAGTGTAATTATCACCTTCTTTGCCTAAGACCTAAAATATGACTTTGGAAGCTCCTGATGTCAGTCCCTTGTTCCCATTAATTTGCCTTTTGTTAAGCATCAAGTTTTTCTGTTGTAGATTATTCCCTGCTTTTCAGTCATTTGATATCAAACTCCTGTATATCATCCTTGTAAACTACTAGTTAGCCCCAATGTTTGCTGTAGGTGTTTTCAGATTGTGAATGAAATGAATCCATTGCTGCTAGTTTGAATGTGAACTTATACCAATCATGATGGTTTAATTGATTACAC</gDNA_template>
            <first_frame> M  K  R  *  L  L  F  L  S  S  I  R  S  E  P  *  T  S  P  M  A  G  A  G  D  D  S  H  L  Q  N  D  V  V  S  V  H  C  I  N  D  S  L  G  D  D  E  L  R  A  V  L  S  R  L  G  D  D  K  D  K  E  V  F  G  L  V  C  K  R  W  L  R  I  Q  S  T  E  R  K  K  L  C  A  R  A  G  P  H  M  L  R  R  I  A  S  R  F  T  R  L  H  E  L  D  L  S  Q  S  V  S  R  S  F  Y  P  G  V  T  D  S  D  L  S  V  I  A  T  A  F  S  C  L  R  I  L  N  L  Q  N  C  K   : G  I  T  D  K  G  L  A  A  I  G  S  S  L  S  S  L  Q  S  L  D  V  S  Y  C  R  K  I  T  D  K  G  L  S  A  V  A  E  G  C  H  D  L  R  I  L  H  L  S  G  C  R  F  V  S  D  S  L  M  K  A  L  S  E  N  C  H  N  V  E  E  I  G  L  Q  G  C  T  N  I  T  N  S  G  L  S  V  M  V  E  G  C  R  R  I  K  H  L  D  I  N  K  C  I  N  I  G  D  I  G  I  S  S  V  S  E  A  C  S  L  T  L  M  T  L  K  L  L  D  C  Y  K  V  G  D  D  S  I  L  S  L  A  N  H  C  K  N  L  E  T  L  V  I  G  G  C  R  N  I  S  D  E  S  M  K  S  L  A  A  S  C  S  N  S  L  R  K  L  R  M  D  W  C  L  N  I  T  D  S  S  L  D  C  I  L  S  K  C  R  E  L  E  V  L  D  I  G  C  C  E  E  L  T  D  A  A  F  Q  Q  L  G  S  D  N  F  M  L  G  M  K  I  L  K  V  S  N  C  P  K  I  T  V  E  G  I  K  K  L  M  K  S  C  K  F  L  E  Y  L  D  V  R  S  C  P  L  I  T  K  A  G  C  E  E  A  G  I  Q  F  P  E  S  C  K  I  N  F  T  G  S  L  A  E  P  D  V  L  L  *  A  V  L  V  L  A  M  S  L  K  A  *  W  G  S  Y  S  V  I  I  T  F  F  A  *  D  L  K  Y  D  F  G  S  S  *  C  Q  S  L  V  P  I  N  L  P  F  V  K  H  Q  V  F  L  L  *  I  I  P  C  F  S  V  I  *  Y  Q  T  P  V  Y  H  P  C  K  L  L  V  S  P  N  V  C  C  R  C  F  Q  I  V  N  E  M  N  P  L  L  L  V  *  M  *  T  Y  T  N  H  D  G  L  I  D  Y   </first_frame>
            <second_frame>  *  K  D  N  F  S  F  F  P  V  *  D  Q  N  H  K  L  L  R  W  P  A  P  A  T  I  L  I  C  R  T  T  S  F  Q  S  T  V  *  T  T  V  S  A  T  M  S  F  G  P  Y  C  R  D  L  E  T  T  K  T  R  K  F  S  G  W  Y  V  S  G  G  F  V  F  K  V  L  K  G  R  S  F  V  L  G  P  G  L  T  C  S  E  E  S  R  P  D  S  L  D  Y  M  S  L  I  Y  L  N  R  F  L  D  L  S  I  L  V  L  L  I  L  I  F  Q  L  L  L  L  L  S  L  A  C  E  F  S  I  C  R  T  V  K  :  A  *  Q  T  K  D  W  L  L  L  D  Q  V  C  L  L  Y  S  P  *  M  Y  P  T  A  E  R  S  L  T  R  G  F  Q  L  L  L  R  G  V  M  T  *  E  Y  C  I  F  L  A  V  D  L  S  Q  I  H  *  *  K  L  S  P  R  I  A  I  M  W  K  R  *  V  C  K  D  A  P  T  L  P  T  Q  V  S  L  L  W  L  K  V  A  G  G  *  S  I  W  T  L  T  N  A  S  I  L  V  I  L  G  Y  L  V  C  L  K  L  V  H  *  H  S  *  H  *  S  C  W  I  A  I  K  L  V  M  T  L  S  Y  P  W  P  T  T  A  K  I  L  R  H  S  L  L  V  V  A  V  T  Y  Q  M  S  P  *  S  H  W  Q  L  L  V  V  I  V  *  G  N  *  G  W  I  G  A  *  I  L  Q  T  L  H  W  T  A  S  F  P  N  A  E  S  L  R  F  S  T  L  A  A  V  R  S  *  L  M  L  H  F  N  N  *  E  V  T  T  L  C  W  G  *  R  F  *  R  S  V  T  V  Q  R  S  L  L  K  E  L  R  S  L  *  S  H  A  N  F  L  N  I  *  T  Y  D  L  V  P  L  S  L  K  Q  G  V  R  R  L  E  F  S  F  L  N  P  A  K  *  T  S  L  E  A  *  Q  S  Q  M  C  Y  F  E  Q  Y  L  F  *  Q  C  L  *  R  P  D  G  D  H  T  V  *  L  S  P  S  L  P  K  T  *  N  M  T  L  E  A  P  D  V  S  P  L  F  P  L  I  C  L  L  L  S  I  K  F  F  C  C  R  L  F  P  A  F  Q  S  F  D  I  K  L  L  Y  I  I  L  V  N  Y  *  L  A  P  M  F  A  V  G  V  F  R  L  *  M  K  *  I  H  C  C  *  F  E  C  E  L  I  P  I  M  M  V  *  L  I  T  </second_frame>
            <third_frame>   E  K  I  T  S  L  S  F  Q  Y  K  I  R  T  I  N  F  S  D  G  R  R  R  R  R  F  S  S  A  E  R  R  R  F  S  P  L  Y  K  R  Q  S  R  R  R  *  A  S  G  R  T  V  E  T  W  R  R  Q  R  Q  G  S  F  R  A  G  M  *  A  V  A  S  Y  S  K  Y  *  K  E  E  A  L  C  S  G  R  A  S  H  A  Q  K  N  R  V  P  I  H  S  I  T  *  A  *  S  I  S  I  G  F  *  I  F  L  S  W  C  Y  *  F  *  S  F  S  Y  C  Y  C  F  L  L  L  A  N  S  Q  S  A  E  L  *  R :   H  N  R  Q  R  I  G  C  Y  W  I  K  S  V  F  F  T  V  L  R  C  I  L  L  Q  K  D  H  *  Q  G  A  F  S  C  C  *  G  V  S  *  L  E  N  I  A  S  F  W  L  *  I  C  L  R  F  I  N  E  S  S  L  R  E  L  P  *  C  G  R  D  R  F  A  R  M  H  Q  H  Y  Q  L  R  S  L  C  Y  G  *  R  L  P  E  D  K  A  F  G  H  *  Q  M  H  Q  Y  W  *  Y  W  D  I  *  C  V  *  S  L  F  I  D  T  H  D  I  E  V  V  G  L  L  *  S  W  *  *  L  Y  L  I  L  G  Q  P  L  Q  K  S  *  D  T  R  Y  W  W  L  P  *  H  I  R  *  V  H  E  V  T  G  S  F  L  *  *  *  S  E  E  T  E  D  G  L  V  L  E  Y  Y  R  L  F  I  G  L  H  P  F  Q  M  Q  R  A  *  G  S  R  H  W  L  L  *  G  V  N  *  C  C  I  S  T  I  R  K  *  Q  L  Y  V  G  D  E  D  F  E  G  Q  *  L  S  K  D  H  C  *  R  N  *  E  A  Y  E  V  M  Q  I  S  *  I  S  R  R  T  I  L  S  P  Y  H  *  S  R  V  *  G  G  W  N  S  V  S  *  I  L  Q  N  K  L  H  W  K  L  S  R  A  R  C  V  T  L  S  S  T  C  F  S  N  V  F  E  G  L  M  G  I  I  Q  C  N  Y  H  L  L  C  L  R  P  K  I  *  L  W  K  L  L  M  S  V  P  C  S  H  *  F  A  F  C  *  A  S  S  F  S  V  V  D  Y  S  L  L  F  S  H  L  I  S  N  S  C  I  S  S  L  *  T  T  S  *  P  Q  C  L  L  *  V  F  S  D  C  E  *  N  E  S  I  A  A  S  L  N  V  N  L  Y  Q  S  *  W  F  N  *  L  H </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="9" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="53393" stop="53771"/>
                    <exon start="54476" stop="55368"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>1269</number_coding_nucleotides>
                  <number_encoded_amino_acids>423</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>TSPMAGAGDDSHLQNDVVSVHCINDSLGDDELRAVLSRLGDDKDKEVFGLVCKRWLRIQSTERKKLCARAGPHMLRRIASRFTRLHELDLSQSVSRSFYPGVTDSDLSVIATAFSCLRILNLQNCKGITDKGLAAIGSSLSSLQSLDVSYCRKITDKGLSAVAEGCHDLRILHLSGCRFVSDSLMKALSENCHNVEEIGLQGCTNITNSGLSVMVEGCRRIKHLDINKCINIGDIGISSVSEACSLTLMTLKLLDCYKVGDDSILSLANHCKNLETLVIGGCRNISDESMKSLAASCSNSLRKLRMDWCLNITDSSLDCILSKCRELEVLDIGCCEELTDAAFQQLGSDNFMLGMKILKVSNCPKITVEGIKKLMKSCKFLEYLDVRSCPLITKAGCEEAGIQFPESCKINFTGSLAEPDVLL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="10" PGL_strand="-" PGL_start="57642" PGL_stop="56067"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="57642" e_stop="57438"/>
            <exon e_start="57344" e_stop="57270"/>
            <exon e_start="56868" e_stop="56594"/>
            <exon e_start="56513" e_stop="56067"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.991" e_score="1.000"/>
          <exon-intron don_prob="0.997" acc_prob="0.999" e_score="1.000"/>
          <exon-intron don_prob="0.996" acc_prob="0.981" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="57642" e_stop="57438" e_length="205"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.991">
            <gDNA_intron_boundary i_start="57437" i_stop="57345" i_length="93"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="57344" e_stop="57270" e_length="75"/>
          </exon>
          <intron i_serial="2" don_prob="0.997" acc_prob="0.999">
            <gDNA_intron_boundary i_start="57269" i_stop="56869" i_length="401"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="56868" e_stop="56594" e_length="275"/>
          </exon>
          <intron i_serial="3" don_prob="0.996" acc_prob="0.981">
            <gDNA_intron_boundary i_start="56593" i_stop="56514" i_length="80"/>
          </intron>
          <exon e_serial="4" e_score="1.000">
            <gDNA_exon_boundary e_start="56513" e_stop="56067" e_length="447"/>
          </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="57642" stop="57438"/>
              <exon start="57344" stop="57270"/>
              <exon start="56868" stop="56598"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E254540" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="57612" stop="57438"/>
              <exon start="57344" stop="57270"/>
              <exon start="56868" stop="56594"/>
              <exon start="56513" stop="56338"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E340782" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="57450" stop="57438"/>
              <exon start="57344" stop="57270"/>
              <exon start="56868" stop="56594"/>
              <exon start="56513" stop="56067"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E555379" strand="-"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="57319" stop="57270"/>
              <exon start="56868" stop="56594"/>
              <exon start="56513" stop="56067"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E554065" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="10" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCCCACATACCTTCAAAATACAGTAATACTCCACCTCAAACCAGAATCACAATGGACTTACTCCGTGGAAATTCGGTGGGTATTCCCATGAGTTCATCAGTAGGTTCACTTGAAAGCCAGCCGAAAAGACTACTTGCCTTACCTGCTTGCGAAGACCATATCGTTCCATATGCAACTTCAAAGAACTTGTCTCAAATTAAGCAGA : GAAGATATGTCATTGGTAAGATGAACAAATTGGGAGAAAGGGTGGATTGTCTAGTAAAAAGCATCCGCGAGCATG : TGAGCCTAAGCCCGAAACTAACAGAAACTTTAAAGGGAAAATTGAGCCTTGGAGCAAAAATCCTTCAAGTAGGAGGGTTGGAGAAAATATTCAGGCAGAAGTTCAGTGTTAGAGATGATGAAAAGCTATTGAATGTTTCTCAATGCTATTTATCAACGACAGCTGGTCCAATAGCAGGCCTTCTCTTCATCTCTACCGATAAGATTGCTTTCTGCAGCGAGAGATCAATAAAGCTCTTATCTCCAACTGGAAAGTTGCTTAGAATCTACTATAAG : GTAACCATCCCAATAAGTAAGATAATGAAAGCAAAAGAGAGCAAAAATATGCAAAAGCCATCACAGAAGTATATACAAGTAATTACAGAGGATGATTTTGAGTTCTGGTTTATGGGATTCCTCAATCATCAAAAGACACTGAGATATCTGCAGCAGGCAATCTCCAGCTCAAGCAAGTTATGAAGACACATTTTTTTTTCTAATGAGCTCGTTCTTCAATGTAAAACGTTCATGCAAAAACGAATTCAGGGATCTGTTAAAACTTTGTAACTAGATCCATTGCTCAAAGGAGGCTTAAGGTTTAACCTTTGTGCCCTTAAGAGTTAATGGGAATGTATAGACTTTTTTTTCTCTAAAACTGGTAGCTTTTGTATAGACTTATTTTGTTTTTTGAGATAGCAAGAGATACGAATGTACAAATTTATTATAAAACTTGTGGAGATAGAT</gDNA_template>
            <first_frame> S  H  I  P  S  K  Y  S  N  T  P  P  Q  T  R  I  T  M  D  L  L  R  G  N  S  V  G  I  P  M  S  S  S  V  G  S  L  E  S  Q  P  K  R  L  L  A  L  P  A  C  E  D  H  I  V  P  Y  A  T  S  K  N  L  S  Q  I  K  Q   : R  R  Y  V  I  G  K  M  N  K  L  G  E  R  V  D  C  L  V  K  S  I  R  E  H   : V  S  L  S  P  K  L  T  E  T  L  K  G  K  L  S  L  G  A  K  I  L  Q  V  G  G  L  E  K  I  F  R  Q  K  F  S  V  R  D  D  E  K  L  L  N  V  S  Q  C  Y  L  S  T  T  A  G  P  I  A  G  L  L  F  I  S  T  D  K  I  A  F  C  S  E  R  S  I  K  L  L  S  P  T  G  K  L  L  R  I  Y  Y  K  :  V  T  I  P  I  S  K  I  M  K  A  K  E  S  K  N  M  Q  K  P  S  Q  K  Y  I  Q  V  I  T  E  D  D  F  E  F  W  F  M  G  F  L  N  H  Q  K  T  L  R  Y  L  Q  Q  A  I  S  S  S  S  K  L  *  R  H  I  F  F  S  N  E  L  V  L  Q  C  K  T  F  M  Q  K  R  I  Q  G  S  V  K  T  L  *  L  D  P  L  L  K  G  G  L  R  F  N  L  C  A  L  K  S  *  W  E  C  I  D  F  F  F  S  K  T  G  S  F  C  I  D  L  F  C  F  L  R  *  Q  E  I  R  M  Y  K  F  I  I  K  L  V  E  I  D </first_frame>
            <second_frame>  P  T  Y  L  Q  N  T  V  I  L  H  L  K  P  E  S  Q  W  T  Y  S  V  E  I  R  W  V  F  P  *  V  H  Q  *  V  H  L  K  A  S  R  K  D  Y  L  P  Y  L  L  A  K  T  I  S  F  H  M  Q  L  Q  R  T  C  L  K  L  S  R  :  E  D  M  S  L  V  R  *  T  N  W  E  K  G  W  I  V  *  *  K  A  S  A  S  M  :  *  A  *  A  R  N  *  Q  K  L  *  R  E  N  *  A  L  E  Q  K  S  F  K  *  E  G  W  R  K  Y  S  G  R  S  S  V  L  E  M  M  K  S  Y  *  M  F  L  N  A  I  Y  Q  R  Q  L  V  Q  *  Q  A  F  S  S  S  L  P  I  R  L  L  S  A  A  R  D  Q  *  S  S  Y  L  Q  L  E  S  C  L  E  S  T  I  R :   *  P  S  Q  *  V  R  *  *  K  Q  K  R  A  K  I  C  K  S  H  H  R  S  I  Y  K  *  L  Q  R  M  I  L  S  S  G  L  W  D  S  S  I  I  K  R  H  *  D  I  C  S  R  Q  S  P  A  Q  A  S  Y  E  D  T  F  F  F  L  M  S  S  F  F  N  V  K  R  S  C  K  N  E  F  R  D  L  L  K  L  C  N  *  I  H  C  S  K  E  A  *  G  L  T  F  V  P  L  R  V  N  G  N  V  *  T  F  F  S  L  K  L  V  A  F  V  *  T  Y  F  V  F  *  D  S  K  R  Y  E  C  T  N  L  L  *  N  L  W  R  *   </second_frame>
            <third_frame>   P  H  T  F  K  I  Q  *  Y  S  T  S  N  Q  N  H  N  G  L  T  P  W  K  F  G  G  Y  S  H  E  F  I  S  R  F  T  *  K  P  A  E  K  T  T  C  L  T  C  L  R  R  P  Y  R  S  I  C  N  F  K  E  L  V  S  N  *  A  E :   K  I  C  H  W  *  D  E  Q  I  G  R  K  G  G  L  S  S  K  K  H  P  R  A  C :   E  P  K  P  E  T  N  R  N  F  K  G  K  I  E  P  W  S  K  N  P  S  S  R  R  V  G  E  N  I  Q  A  E  V  Q  C  *  R  *  *  K  A  I  E  C  F  S  M  L  F  I  N  D  S  W  S  N  S  R  P  S  L  H  L  Y  R  *  D  C  F  L  Q  R  E  I  N  K  A  L  I  S  N  W  K  V  A  *  N  L  L  *   : G  N  H  P  N  K  *  D  N  E  S  K  R  E  Q  K  Y  A  K  A  I  T  E  V  Y  T  S  N  Y  R  G  *  F  *  V  L  V  Y  G  I  P  Q  S  S  K  D  T  E  I  S  A  A  G  N  L  Q  L  K  Q  V  M  K  T  H  F  F  F  *  *  A  R  S  S  M  *  N  V  H  A  K  T  N  S  G  I  C  *  N  F  V  T  R  S  I  A  Q  R  R  L  K  V  *  P  L  C  P  *  E  L  M  G  M  Y  R  L  F  F  L  *  N  W  *  L  L  Y  R  L  I  L  F  F  E  I  A  R  D  T  N  V  Q  I  Y  Y  K  T  C  G  D  R  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="-"/>
                <serials PGL_serial="10" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="57642" stop="57438"/>
                    <exon start="57344" stop="57270"/>
                    <exon start="56868" stop="56594"/>
                    <exon start="56513" stop="56331"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>735</number_coding_nucleotides>
                  <number_encoded_amino_acids>245</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SHIPSKYSNTPPQTRITMDLLRGNSVGIPMSSSVGSLESQPKRLLALPACEDHIVPYATSKNLSQIKQRRYVIGKMNKLGERVDCLVKSIREHVSLSPKLTETLKGKLSLGAKILQVGGLEKIFRQKFSVRDDEKLLNVSQCYLSTTAGPIAGLLFISTDKIAFCSERSIKLLSPTGKLLRIYYKVTIPISKIMKAKESKNMQKPSQKYIQVITEDDFEFWFMGFLNHQKTLRYLQQAISSSSKL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="11" PGL_strand="-" PGL_start="62452" PGL_stop="62104"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="62452" e_stop="62104"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.997"/>
        </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="0.997">
            <gDNA_exon_boundary e_start="62452" e_stop="62104" e_length="349"/>
          </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="62452" stop="62104"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E222998" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="62398" stop="62104"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E223364" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="11" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TATGGAAAAGCCATCACAGAAGTATATACAGTTAGTTACAGAGGACGATTACGAGTTCTGGTTTATGGGGTTCTTTAATAATCAAAAAACTCTAAGATATCTGCAGCAGGCAATTTCAACTTTCACAAACTTCAATCAGCTAAGACGATAGTTTTTTAATTTTATTTTGTTTCCTAATACACCCATTCATCAATGTAAAATGTTGATGCAAGATGCAGATATGTTCAAACTTGTAACTAGCTCCATTGCTCAAAGGAGGTTTTAGATTTTTTAGGCTTTAAGCCTAAGTTGTTAATACGAATGTATAGACTTATTGTAAAACTAATCAAACAGGAGGCTAATTCATCTT</gDNA_template>
            <first_frame> Y  G  K  A  I  T  E  V  Y  T  V  S  Y  R  G  R  L  R  V  L  V  Y  G  V  L  *  *  S  K  N  S  K  I  S  A  A  G  N  F  N  F  H  K  L  Q  S  A  K  T  I  V  F  *  F  Y  F  V  S  *  Y  T  H  S  S  M  *  N  V  D  A  R  C  R  Y  V  Q  T  C  N  *  L  H  C  S  K  E  V  L  D  F  L  G  F  K  P  K  L  L  I  R  M  Y  R  L  I  V  K  L  I  K  Q  E  A  N  S  S  </first_frame>
            <second_frame>  M  E  K  P  S  Q  K  Y  I  Q  L  V  T  E  D  D  Y  E  F  W  F  M  G  F  F  N  N  Q  K  T  L  R  Y  L  Q  Q  A  I  S  T  F  T  N  F  N  Q  L  R  R  *  F  F  N  F  I  L  F  P  N  T  P  I  H  Q  C  K  M  L  M  Q  D  A  D  M  F  K  L  V  T  S  S  I  A  Q  R  R  F  *  I  F  *  A  L  S  L  S  C  *  Y  E  C  I  D  L  L  *  N  *  S  N  R  R  L  I  H  L </second_frame>
            <third_frame>   W  K  S  H  H  R  S  I  Y  S  *  L  Q  R  T  I  T  S  S  G  L  W  G  S  L  I  I  K  K  L  *  D  I  C  S  R  Q  F  Q  L  S  Q  T  S  I  S  *  D  D  S  F  L  I  L  F  C  F  L  I  H  P  F  I  N  V  K  C  *  C  K  M  Q  I  C  S  N  L  *  L  A  P  L  L  K  G  G  F  R  F  F  R  L  *  A  *  V  V  N  T  N  V  *  T  Y  C  K  T  N  Q  T  G  G  *  F  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0332P16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="12" PGL_strand="+" PGL_start="86964" PGL_stop="95852"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="86964" e_stop="86998"/>
            <exon e_start="94709" e_stop="94794"/>
            <exon e_start="95084" e_stop="95768"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.979" acc_prob="0.996" e_score="0.800"/>
          <exon-intron don_prob="0.992" acc_prob="0.861" e_score="0.977"/>
          <exon-only e_score="0.955"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.800">
            <gDNA_exon_boundary e_start="86964" e_stop="86998" e_length="35"/>
          </exon>
          <intron i_serial="1" don_prob="0.979" acc_prob="0.996">
            <gDNA_intron_boundary i_start="86999" i_stop="94708" i_length="7710"/>
          </intron>
          <exon e_serial="2" e_score="0.977">
            <gDNA_exon_boundary e_start="94709" e_stop="94794" e_length="86"/>
          </exon>
          <intron i_serial="2" don_prob="0.992" acc_prob="0.861">
            <gDNA_intron_boundary i_start="94795" i_stop="95083" i_length="289"/>
          </intron>
          <exon e_serial="3" e_score="0.955">
            <gDNA_exon_boundary e_start="95084" e_stop="95768" e_length="685"/>
          </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="86964" stop="86998"/>
              <exon start="94709" stop="94794"/>
              <exon start="95084" stop="95746"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E329081" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="95096" stop="95768"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E327115" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GTTGACACAAAAGAAGAAACAGCCAAACTAAATTG : GATTTATCGTTCAAGAAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG : ATAGAAGGAGGGATGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGTCTTGATTTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAATATTGGAAGCCGCGAATTTTGCAAGATGTTGTTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTGTTGAGATAGGCCCAAGACTAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAAGCAAATACTCCGAGATTTGATGTTACTAAAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGATATCCCATTGGCAATACAAGCTGTGAAGTCGTTTACTTCTTTTGTTGACATAGAAGAAATTATCCATAAACATTCCGATTCACCCTTAATAAAGATAGCATCTAACGCAGGTGATATCAAACATTTACTTCATGCAGTACACATACTTTCATGTCATG</gDNA_template>
            <first_frame> V  D  T  K  E  E  T  A  K  L  N  W :   I  Y  R  S  R  K  R  D  G  T  L  H  *  N  R  *  S  N  S  T  A  F  S  N  L  S  R  *   : D  R  R  R  D  E  S  G  S  F  I  *  E  F  I  Q  F  A  C  *  T  N  *  H  I  Q  S  K  C  G  A  T  *  I  K  S  R  C  L  Y  T  K  D  G  L  Y  W  S  L  P  *  W  K  T  S  I  S  S  N  A  K  E  Q  T  I  V  P  T  T  V  S  *  T  K  G  E  S  *  F  G  *  L  H  Q  *  V  G  G  G  S  K  E  L  L  R  *  Y  R  R  P  Q  Y  W  K  P  R  I  L  Q  D  V  V  T  *  W  L  F  C  G  *  V  Y  S  R  A  C  *  D  R  P  K  T  R  R  R  N  H  Q  K  *  H  W  L  H  I  *  A  N  T  P  R  F  D  V  T  K  K  P  T  S  F  L  C  P  R  Q  A  S  *  D  D  K  A  R  *  *  Y  P  I  G  N  T  S  C  E  V  V  Y  F  F  C  *  H  R  R  N  Y  P  *  T  F  R  F  T  L  N  K  D  S  I  *  R  R  *  Y  Q  T  F  T  S  C  S  T  H  T  F  M  S   </first_frame>
            <second_frame>  L  T  Q  K  K  K  Q  P  N  *  I   : G  F  I  V  Q  E  K  G  M  E  H  S  I  E  I  D  D  Q  I  P  L  L  S  Q  T  Y  Q  D  E  :  I  E  G  G  M  K  V  D  P  L  F  E  N  L  F  N  S  R  V  K  P  I  S  I  F  K  V  N  V  G  L  R  E  S  N  P  D  A  Y  T  P  K  M  V  S  I  G  P  Y  H  N  G  K  P  Q  F  R  P  M  Q  K  N  K  L  L  Y  L  R  R  F  L  R  R  K  E  S  L  D  L  D  S  C  I  N  E  L  E  E  E  A  R  N  C  Y  D  D  I  E  D  L  N  I  G  S  R  E  F  C  K  M  L  L  L  D  G  C  F  V  V  E  F  I  R  E  R  V  E  I  G  P  R  L  E  D  E  I  I  K  S  D  I  G  C  I  Y  K  Q  I  L  R  D  L  M  L  L  K  N  Q  L  P  F  F  V  L  D  K  L  H  E  M  T  K  Q  D  D  D  I  P  L  A  I  Q  A  V  K  S  F  T  S  F  V  D  I  E  E  I  I  H  K  H  S  D  S  P  L  I  K  I  A  S  N  A  G  D  I  K  H  L  L  H  A  V  H  I  L  S  C  H  </second_frame>
            <third_frame>   *  H  K  R  R  N  S  Q  T  K  L  :  D  L  S  F  K  K  K  G  W  N  T  P  L  K  *  M  I  K  F  H  C  F  L  K  L  I  K  M  R :   *  K  E  G  *  K  W  I  L  Y  L  R  I  Y  S  I  R  V  L  N  Q  L  A  Y  S  K  *  M  W  G  Y  V  N  Q  I  Q  M  L  I  H  Q  R  W  S  L  L  V  L  T  I  M  E  N  L  N  F  V  Q  C  K  R  T  N  Y  C  T  Y  D  G  F  L  D  E  R  R  V  L  I  W  I  V  A  S  M  S  W  R  R  K  Q  G  I  V  T  M  I  *  K  T  S  I  L  E  A  A  N  F  A  R  C  C  Y  L  M  V  V  L  W  L  S  L  F  E  S  V  L  R  *  A  Q  D  *  K  T  K  S  S  K  V  T  L  V  A  Y  I  S  K  Y  S  E  I  *  C  Y  *  K  T  N  F  L  S  L  S  S  T  S  F  M  R  *  Q  S  K  M  M  I  S  H  W  Q  Y  K  L  *  S  R  L  L  L  L  L  T  *  K  K  L  S  I  N  I  P  I  H  P  *  *  R  *  H  L  T  Q  V  I  S  N  I  Y  F  M  Q  Y  T  Y  F  H  V  M </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="12" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="86995" stop="86998"/>
                    <exon start="94709" stop="94794"/>
                    <exon start="95084" stop="95767"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>774</number_coding_nucleotides>
                  <number_encoded_amino_acids>258</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IGFIVQEKGMEHSIEIDDQIPLLSQTYQDEIEGGMKVDPLFENLFNSRVKPISIFKVNVGLRESNPDAYTPKMVSIGPYHNGKPQFRPMQKNKLLYLRRFLRRKESLDLDSCINELEEEARNCYDDIEDLNIGSREFCKMLLLDGCFVVEFIRERVEIGPRLEDEIIKSDIGCIYKQILRDLMLLKNQLPFFVLDKLHEMTKQDDDIPLAIQAVKSFTSFVDIEEIIHKHSDSPLIKIASNAGDIKHLLHAVHILSCH</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="94709" e_stop="94794"/>
            <exon e_start="95084" e_stop="95632"/>
            <exon e_start="95748" e_stop="95852"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.992" acc_prob="0.861" e_score="0.942"/>
          <exon-intron don_prob="0.070" acc_prob="0.248" e_score="0.976"/>
          <exon-only e_score="0.990"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.942">
            <gDNA_exon_boundary e_start="94709" e_stop="94794" e_length="86"/>
          </exon>
          <intron i_serial="1" don_prob="0.992" acc_prob="0.861">
            <gDNA_intron_boundary i_start="94795" i_stop="95083" i_length="289"/>
          </intron>
          <exon e_serial="2" e_score="0.976">
            <gDNA_exon_boundary e_start="95084" e_stop="95632" e_length="549"/>
          </exon>
          <intron i_serial="2" don_prob="0.070" acc_prob="0.248">
            <gDNA_intron_boundary i_start="95633" i_stop="95747" i_length="115"/>
          </intron>
          <exon e_serial="3" e_score="0.990">
            <gDNA_exon_boundary e_start="95748" e_stop="95852" e_length="105"/>
          </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="94709" stop="94794"/>
              <exon start="95084" stop="95632"/>
              <exon start="95748" stop="95852"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E689168" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="12" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GATTTATCGTTCAAGAAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG : ATAGAAGGAGGGATGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGTCTTGATTTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAATATTGGAAGCCGCGAATTTTGCAAGATGTTGTTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTGTTGAGATAGGCCCAAGACTAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAAGCAAATACTCCGAGATTTGATGTTACTAAAAAACCAACTTCCTTTCTTTGTCCTCGACAAGCTTCATGAGATGACAAAGCAAGATGATGATATCCCATTGGCAATACAAGCT : TACACATACTTTCATGTCATGGGAACCCCACGAAAACATCAAAAGACGACACAACGTGGACTAAGGCCATGCCAAATGCAACTGAGCTTTCTGAAGCTGGAGTTA</gDNA_template>
            <first_frame> D  L  S  F  K  K  K  G  W  N  T  P  L  K  *  M  I  K  F  H  C  F  L  K  L  I  K  M  R :   *  K  E  G  *  K  W  I  L  Y  L  R  I  Y  S  I  R  V  L  N  Q  L  A  Y  S  K  *  M  W  G  Y  V  N  Q  I  Q  M  L  I  H  Q  R  W  S  L  L  V  L  T  I  M  E  N  L  N  F  V  Q  C  K  R  T  N  Y  C  T  Y  D  G  F  L  D  E  R  R  V  L  I  W  I  V  A  S  M  S  W  R  R  K  Q  G  I  V  T  M  I  *  K  T  S  I  L  E  A  A  N  F  A  R  C  C  Y  L  M  V  V  L  W  L  S  L  F  E  S  V  L  R  *  A  Q  D  *  K  T  K  S  S  K  V  T  L  V  A  Y  I  S  K  Y  S  E  I  *  C  Y  *  K  T  N  F  L  S  L  S  S  T  S  F  M  R  *  Q  S  K  M  M  I  S  H  W  Q  Y  K  L :   T  H  T  F  M  S  W  E  P  H  E  N  I  K  R  R  H  N  V  D  *  G  H  A  K  C  N  *  A  F  *  S  W  S   </first_frame>
            <second_frame>  I  Y  R  S  R  K  R  D  G  T  L  H  *  N  R  *  S  N  S  T  A  F  S  N  L  S  R  *   : D  R  R  R  D  E  S  G  S  F  I  *  E  F  I  Q  F  A  C  *  T  N  *  H  I  Q  S  K  C  G  A  T  *  I  K  S  R  C  L  Y  T  K  D  G  L  Y  W  S  L  P  *  W  K  T  S  I  S  S  N  A  K  E  Q  T  I  V  P  T  T  V  S  *  T  K  G  E  S  *  F  G  *  L  H  Q  *  V  G  G  G  S  K  E  L  L  R  *  Y  R  R  P  Q  Y  W  K  P  R  I  L  Q  D  V  V  T  *  W  L  F  C  G  *  V  Y  S  R  A  C  *  D  R  P  K  T  R  R  R  N  H  Q  K  *  H  W  L  H  I  *  A  N  T  P  R  F  D  V  T  K  K  P  T  S  F  L  C  P  R  Q  A  S  *  D  D  K  A  R  *  *  Y  P  I  G  N  T  S   : L  H  I  L  S  C  H  G  N  P  T  K  T  S  K  D  D  T  T  W  T  K  A  M  P  N  A  T  E  L  S  E  A  G  V  </second_frame>
            <third_frame>   F  I  V  Q  E  K  G  M  E  H  S  I  E  I  D  D  Q  I  P  L  L  S  Q  T  Y  Q  D  E  :  I  E  G  G  M  K  V  D  P  L  F  E  N  L  F  N  S  R  V  K  P  I  S  I  F  K  V  N  V  G  L  R  E  S  N  P  D  A  Y  T  P  K  M  V  S  I  G  P  Y  H  N  G  K  P  Q  F  R  P  M  Q  K  N  K  L  L  Y  L  R  R  F  L  R  R  K  E  S  L  D  L  D  S  C  I  N  E  L  E  E  E  A  R  N  C  Y  D  D  I  E  D  L  N  I  G  S  R  E  F  C  K  M  L  L  L  D  G  C  F  V  V  E  F  I  R  E  R  V  E  I  G  P  R  L  E  D  E  I  I  K  S  D  I  G  C  I  Y  K  Q  I  L  R  D  L  M  L  L  K  N  Q  L  P  F  F  V  L  D  K  L  H  E  M  T  K  Q  D  D  D  I  P  L  A  I  Q  A  :  Y  T  Y  F  H  V  M  G  T  P  R  K  H  Q  K  T  T  Q  R  G  L  R  P  C  Q  M  Q  L  S  F  L  K  L  E  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="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="12" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="94711" stop="94794"/>
                    <exon start="95084" stop="95632"/>
                    <exon start="95748" stop="95852"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>738</number_coding_nucleotides>
                  <number_encoded_amino_acids>246</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FIVQEKGMEHSIEIDDQIPLLSQTYQDEIEGGMKVDPLFENLFNSRVKPISIFKVNVGLRESNPDAYTPKMVSIGPYHNGKPQFRPMQKNKLLYLRRFLRRKESLDLDSCINELEEEARNCYDDIEDLNIGSREFCKMLLLDGCFVVEFIRERVEIGPRLEDEIIKSDIGCIYKQILRDLMLLKNQLPFFVLDKLHEMTKQDDDIPLAIQAYTYFHVMGTPRKHQKTTQRGLRPCQMQLSFLKLEL</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="13" PGL_strand="-" PGL_start="108605" PGL_stop="107970"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="108605" e_stop="107970"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.995"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.995">
            <gDNA_exon_boundary e_start="108605" e_stop="107970" e_length="636"/>
          </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="108605" stop="107970"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E211327" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="13" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>AATGTAGGGATTAGTTATAACTTATGAGGAAATCTATATACTTTCTCCATTTCAAAAAGAATGCCCTAGTTTGACTTGGAACAAAGTTTAAGAAAAGAAAGAAGACTTTTTAATTTTGTGGTTTTAAAGTGTTGCCAAAAAGGAAATAGAGACATTCTTTTTTAAACGGAGGGAGTATTATTTTATGTATGTATTATTAATATGTAAAGATTAGTTATTCATGCATAAGTTATTCTATTCTATCTCGCATAAAATAATACATAGATTCTCTCATATCTTATAATATATATACATCTTATACGAGTTTCTAAATTGTCAATCAAATGTCATATTAATGCCTACCTACCAATTAACACCATATAAATTATACAATAATTAATAAGTGAATAACTTTTTCCTTATAAATTGATATTATTACCTCTTTGGTTTGGCTGTTTCTTCTTTTGTATTTATTCAACTCTTGCTTCTCTCGGATTTTTCATTGCTATGAAGTACTTATTATATAGAGAAAAAAAAGAAGAGAGAGATTGATAAATACTGTTAATTGTAGGGTAGGGGGTGTCAATGTTAGGTTCGATCGATTATTTTATAAAATTTAAATAAAGGTATAGTATCATCTTCAACTTCATCATCTCA</gDNA_template>
            <first_frame> N  V  G  I  S  Y  N  L  *  G  N  L  Y  T  F  S  I  S  K  R  M  P  *  F  D  L  E  Q  S  L  R  K  E  R  R  L  F  N  F  V  V  L  K  C  C  Q  K  G  N  R  D  I  L  F  *  T  E  G  V  L  F  Y  V  C  I  I  N  M  *  R  L  V  I  H  A  *  V  I  L  F  Y  L  A  *  N  N  T  *  I  L  S  Y  L  I  I  Y  I  H  L  I  R  V  S  K  L  S  I  K  C  H  I  N  A  Y  L  P  I  N  T  I  *  I  I  Q  *  L  I  S  E  *  L  F  P  Y  K  L  I  L  L  P  L  W  F  G  C  F  F  F  C  I  Y  S  T  L  A  S  L  G  F  F  I  A  M  K  Y  L  L  Y  R  E  K  K  E  E  R  D  *  *  I  L  L  I  V  G  *  G  V  S  M  L  G  S  I  D  Y  F  I  K  F  K  *  R  Y  S  I  I  F  N  F  I  I  S </first_frame>
            <second_frame>  M  *  G  L  V  I  T  Y  E  E  I  Y  I  L  S  P  F  Q  K  E  C  P  S  L  T  W  N  K  V  *  E  K  K  E  D  F  L  I  L  W  F  *  S  V  A  K  K  E  I  E  T  F  F  F  K  R  R  E  Y  Y  F  M  Y  V  L  L  I  C  K  D  *  L  F  M  H  K  L  F  Y  S  I  S  H  K  I  I  H  R  F  S  H  I  L  *  Y  I  Y  I  L  Y  E  F  L  N  C  Q  S  N  V  I  L  M  P  T  Y  Q  L  T  P  Y  K  L  Y  N  N  *  *  V  N  N  F  F  L  I  N  *  Y  Y  Y  L  F  G  L  A  V  S  S  F  V  F  I  Q  L  L  L  L  S  D  F  S  L  L  *  S  T  Y  Y  I  E  K  K  K  K  R  E  I  D  K  Y  C  *  L  *  G  R  G  C  Q  C  *  V  R  S  I  I  L  *  N  L  N  K  G  I  V  S  S  S  T  S  S  S   </second_frame>
            <third_frame>   C  R  D  *  L  *  L  M  R  K  S  I  Y  F  L  H  F  K  K  N  A  L  V  *  L  G  T  K  F  K  K  R  K  K  T  F  *  F  C  G  F  K  V  L  P  K  R  K  *  R  H  S  F  L  N  G  G  S  I  I  L  C  M  Y  Y  *  Y  V  K  I  S  Y  S  C  I  S  Y  S  I  L  S  R  I  K  *  Y  I  D  S  L  I  S  Y  N  I  Y  T  S  Y  T  S  F  *  I  V  N  Q  M  S  Y  *  C  L  P  T  N  *  H  H  I  N  Y  T  I  I  N  K  *  I  T  F  S  L  *  I  D  I  I  T  S  L  V  W  L  F  L  L  L  Y  L  F  N  S  C  F  S  R  I  F  H  C  Y  E  V  L  I  I  *  R  K  K  R  R  E  R  L  I  N  T  V  N  C  R  V  G  G  V  N  V  R  F  D  R  L  F  Y  K  I  *  I  K  V  *  Y  H  L  Q  L  H  H  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/">
            <none gDNA_id="C04HBa0332P16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="14" PGL_strand="+" PGL_start="108144" PGL_stop="110552"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="108144" e_stop="108187"/>
            <exon e_start="108789" e_stop="108874"/>
            <exon e_start="110084" e_stop="110552"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.998" acc_prob="0.982" e_score="0.977"/>
          <exon-intron don_prob="0.993" acc_prob="0.998" 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="0.977">
            <gDNA_exon_boundary e_start="108144" e_stop="108187" e_length="44"/>
          </exon>
          <intron i_serial="1" don_prob="0.998" acc_prob="0.982">
            <gDNA_intron_boundary i_start="108188" i_stop="108788" i_length="601"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="108789" e_stop="108874" e_length="86"/>
          </exon>
          <intron i_serial="2" don_prob="0.993" acc_prob="0.998">
            <gDNA_intron_boundary i_start="108875" i_stop="110083" i_length="1209"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="110084" e_stop="110552" e_length="469"/>
          </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="108144" stop="108187"/>
              <exon start="108789" stop="108874"/>
              <exon start="110084" stop="110552"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325782" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="108166" stop="108187"/>
              <exon start="108789" stop="108874"/>
              <exon start="110084" stop="110505"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318501" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="14" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AAGAGTTGAATAAATACAAAAGAAGAAACAGCCAAACCAAAGAG : AATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG : ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTATTCGAGAGCGTTTTGAGATAGGCCCAAGACAAGAAGACGAAATCATCAAAAGTGACATTGGTTGCATATATAATCAAATACTCCGAGATTTGATGTTACTAGAAA</gDNA_template>
            <first_frame> K  S  *  I  N  T  K  E  E  T  A  K  P  K  R :   I  Y  R  S  R  K  R  D  G  T  L  H  *  N  R  *  S  N  S  T  A  F  S  N  L  S  R  *   : D  R  R  R  E  E  S  G  S  F  I  *  E  F  I  Q  F  A  C  *  T  N  *  H  I  Q  S  K  C  G  A  T  *  I  K  S  R  C  L  Y  T  K  D  G  L  Y  W  S  L  P  *  W  K  T  S  I  S  S  N  A  K  E  Q  T  I  V  P  T  T  V  S  *  T  K  G  E  A  *  C  G  *  L  H  Q  *  V  G  G  G  S  K  E  L  L  R  *  Y  R  R  P  Q  N  W  K  P  R  I  L  R  D  V  I  T  *  W  L  F  C  G  *  V  Y  S  R  A  F  *  D  R  P  K  T  R  R  R  N  H  Q  K  *  H  W  L  H  I  *  S  N  T  P  R  F  D  V  T  R   </first_frame>
            <second_frame>  R  V  E  *  I  Q  K  K  K  Q  P  N  Q  R   : E  F  I  V  Q  G  K  G  M  E  H  S  I  E  I  D  D  Q  I  P  L  L  S  Q  T  Y  Q  D  E  :  I  E  G  G  R  K  V  D  P  L  F  E  N  L  F  N  S  R  V  K  P  I  S  I  F  K  V  N  V  G  L  R  E  S  N  P  D  A  Y  T  P  K  M  V  S  I  G  P  Y  H  N  G  K  P  Q  F  R  P  M  Q  K  N  K  L  L  Y  L  R  R  F  L  R  R  K  E  R  L  D  V  D  S  C  I  N  E  L  E  E  E  A  R  N  C  Y  D  D  I  E  D  L  K  I  G  S  R  E  F  C  E  M  L  L  L  D  G  C  F  V  V  E  F  I  R  E  R  F  E  I  G  P  R  Q  E  D  E  I  I  K  S  D  I  G  C  I  Y  N  Q  I  L  R  D  L  M  L  L  E  </second_frame>
            <third_frame>   E  L  N  K  Y  K  R  R  N  S  Q  T  K  E  :  N  L  S  F  K  E  K  G  W  N  T  P  L  K  *  M  I  K  F  H  C  F  L  K  L  I  K  M  R :   *  K  E  G  G  K  W  I  L  Y  L  R  I  Y  S  I  R  V  L  N  Q  L  A  Y  S  K  *  M  W  G  Y  V  N  Q  I  Q  M  L  I  H  Q  R  W  S  L  L  V  L  T  I  M  E  N  L  N  F  V  Q  C  K  R  T  N  Y  C  T  Y  D  G  F  L  D  E  R  R  G  L  M  W  I  V  A  S  M  S  W  R  R  K  Q  G  I  V  T  M  I  *  K  T  S  K  L  E  A  A  N  F  A  R  C  Y  Y  L  M  V  V  L  W  L  S  L  F  E  S  V  L  R  *  A  Q  D  K  K  T  K  S  S  K  V  T  L  V  A  Y  I  I  K  Y  S  E  I  *  C  Y  *  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="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="14" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="108157" stop="108187"/>
                    <exon start="108789" stop="108874"/>
                    <exon start="110084" stop="110551"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>585</number_coding_nucleotides>
                  <number_encoded_amino_acids>195</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>IQKKKQPNQREFIVQGKGMEHSIEIDDQIPLLSQTYQDEIEGGRKVDPLFENLFNSRVKPISIFKVNVGLRESNPDAYTPKMVSIGPYHNGKPQFRPMQKNKLLYLRRFLRRKERLDVDSCINELEEEARNCYDDIEDLKIGSREFCEMLLLDGCFVVEFIRERFEIGPRQEDEIIKSDIGCIYNQILRDLMLLE</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
      <AGS_information>
        <AGS_line AGS_serial="2">
          <exon_coordinates>
            <exon e_start="108787" e_stop="108874"/>
            <exon e_start="110084" e_stop="110447"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.993" acc_prob="0.998" e_score="1.000"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="108787" e_stop="108874" e_length="88"/>
          </exon>
          <intron i_serial="1" don_prob="0.993" acc_prob="0.998">
            <gDNA_intron_boundary i_start="108875" i_stop="110083" i_length="1209"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="110084" e_stop="110447" e_length="364"/>
          </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="108787" stop="108874"/>
              <exon start="110084" stop="110447"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E324719" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="14" AGS_serial="2" gDNA_strand="+"/>
          <translation>
            <gDNA_template>AGAATTTATCGTTCAAGGAAAAGGGATGGAACACTCCATTGAAATAGATGATCAAATTCCACTGCTTTCTCAAACTTATCAAGATGAG : ATAGAAGGAGGGAGGAAAGTGGATCCTTTATTTGAGAATTTATTCAATTCGCGTGTTAAACCAATTAGCATATTCAAAGTAAATGTGGGGCTACGTGAATCAAATCCAGATGCTTATACACCAAAGATGGTCTCTATTGGTCCTTACCATAATGGAAAACCTCAATTTCGTCCAATGCAAAAGAACAAACTATTGTACCTACGACGGTTTCTTAGACGAAAGGAGAGGCTTGATGTGGATAGTTGCATCAATGAGTTGGAGGAGGAAGCAAGGAATTGTTACGATGATATAGAAGACCTCAAAATTGGAAGCCGCGAATTTTGCGAGATGTTATTACTTGATGGTTGTTTTGTGGTTGAGTTTA</gDNA_template>
            <first_frame> R  I  Y  R  S  R  K  R  D  G  T  L  H  *  N  R  *  S  N  S  T  A  F  S  N  L  S  R  *   : D  R  R  R  E  E  S  G  S  F  I  *  E  F  I  Q  F  A  C  *  T  N  *  H  I  Q  S  K  C  G  A  T  *  I  K  S  R  C  L  Y  T  K  D  G  L  Y  W  S  L  P  *  W  K  T  S  I  S  S  N  A  K  E  Q  T  I  V  P  T  T  V  S  *  T  K  G  E  A  *  C  G  *  L  H  Q  *  V  G  G  G  S  K  E  L  L  R  *  Y  R  R  P  Q  N  W  K  P  R  I  L  R  D  V  I  T  *  W  L  F  C  G  *  V   </first_frame>
            <second_frame>  E  F  I  V  Q  G  K  G  M  E  H  S  I  E  I  D  D  Q  I  P  L  L  S  Q  T  Y  Q  D  E  :  I  E  G  G  R  K  V  D  P  L  F  E  N  L  F  N  S  R  V  K  P  I  S  I  F  K  V  N  V  G  L  R  E  S  N  P  D  A  Y  T  P  K  M  V  S  I  G  P  Y  H  N  G  K  P  Q  F  R  P  M  Q  K  N  K  L  L  Y  L  R  R  F  L  R  R  K  E  R  L  D  V  D  S  C  I  N  E  L  E  E  E  A  R  N  C  Y  D  D  I  E  D  L  K  I  G  S  R  E  F  C  E  M  L  L  L  D  G  C  F  V  V  E  F  </second_frame>
            <third_frame>   N  L  S  F  K  E  K  G  W  N  T  P  L  K  *  M  I  K  F  H  C  F  L  K  L  I  K  M  R :   *  K  E  G  G  K  W  I  L  Y  L  R  I  Y  S  I  R  V  L  N  Q  L  A  Y  S  K  *  M  W  G  Y  V  N  Q  I  Q  M  L  I  H  Q  R  W  S  L  L  V  L  T  I  M  E  N  L  N  F  V  Q  C  K  R  T  N  Y  C  T  Y  D  G  F  L  D  E  R  R  G  L  M  W  I  V  A  S  M  S  W  R  R  K  Q  G  I  V  T  M  I  *  K  T  S  K  L  E  A  A  N  F  A  R  C  Y  Y  L  M  V  V  L  W  L  S  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="C04HBa0332P16.1" strand="+"/>
                <serials PGL_serial="14" AGS_serial="2" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="108788" stop="108874"/>
                    <exon start="110084" stop="110446"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>450</number_coding_nucleotides>
                  <number_encoded_amino_acids>150</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>EFIVQGKGMEHSIEIDDQIPLLSQTYQDEIEGGRKVDPLFENLFNSRVKPISIFKVNVGLRESNPDAYTPKMVSIGPYHNGKPQFRPMQKNKLLYLRRFLRRKERLDVDSCINELEEEARNCYDDIEDLKIGSREFCEMLLLDGCFVVEF</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 455 chains have been computed
$ 
$ memory statistics:
$ 807696 bytes spliced alignments in total
$ 368 spliced alignments have been stored
$ 2194 bytes was the average size of a spliced alignment
$ 31088 bytes predicted gene locations in total
$ 14 predicted gene locations have been stored
$ 2220 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 490 backtrace matrices have been allocated
$ 
$ date finished: 2009-02-20 08:36:56
-->
