<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-15 23:43:06"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/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-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E218533" ref_strand="+" ref_description="SGN-E218533 [cLEL-18-D5](-)">
      <seq>gtcttgtcagtatgtttactattgttgtaggttcattctttgcatacatgttggacatgcacaagcgtctataatggggctccctacctcctactcttctctccctcactattgtatcatataatgctaaggcaactataacgattgtacggagtatttcttgtccatatttgttcataaagcttagcaaaccatgtgatttcattaaatattttgatgatatagtaggggaaatgttatttagatcttattacatagtctggtaagttcatatgctcaaataatgagttagctcttattacatggtttggtatgttcatatgctcaaatnntcnnaaaaaaaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="58301" stop="57368"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="58001" g_stop="57667" g_length="335"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="335" r_length="335" r_score="0.991"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="337" polyA_stop="353"/>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E218533" ref_strand="+">
        <total_alignment_score>0.991</total_alignment_score>
        <cumulative_length_of_scored_exons>335</cumulative_length_of_scored_exons>
        <coverage percentage="0.949" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E218533" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="58001" e_stop="57667"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCTTGTCAGTATGTTTACTATTGTTGTAGGTTCATTCTTTGCATACATGTTGGACATGCACAAGCGTCTATAATGGGGCTCCCTACCTCCTACTCTTCTCTCCCTCACTATTGTATCATATAATGCTAAGGCAACTATAACGATTGTACGGAGTATTTCTTGTCCATATTTGTTCATAAAGCTTAGCAAACCATGTGATTTCATTAAATATTTTGATGATATAGTAGGGGAAATGTTATTTAGATCTTATTACATAGTCTGGTAAGTTCATATGCTCAAATAATGAGTTAGCTCTTATTACATGGTTTGGTATGTTCATATGCTCAAATAATCA</genome_strand>
        <mrna_strand>GTCTTGTCAGTATGTTTACTATTGTTGTAGGTTCATTCTTTGCATACATGTTGGACATGCACAAGCGTCTATAATGGGGCTCCCTACCTCCTACTCTTCTCTCCCTCACTATTGTATCATATAATGCTAAGGCAACTATAACGATTGTACGGAGTATTTCTTGTCCATATTTGTTCATAAAGCTTAGCAAACCATGTGATTTCATTAAATATTTTGATGATATAGTAGGGGAAATGTTATTTAGATCTTATTACATAGTCTGGTAAGTTCATATGCTCAAATAATGAGTTAGCTCTTATTACATGGTTTGGTATGTTCATATGCTCAAATNNTCN</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E707627" ref_strand="+" ref_description="SGN-E707627 [FA33CB07]">
      <seq>cattactcttacttcaattcaattcaatcattaatctcacaaaagggtaaagatccattgattaactatggtggtttggacccgtgcagtggtaagaacatggagatgtagacccaccaattttagccgggctttttctgaaaaattacctacatcggagcctaagggcagaaatattcagtgggtattcctgggttgccctggtgtcggaaaagggacttatgcagctcgactttctaagcttcttggcgtaccccacatagctactggtgatctcgtccgtcaacaattatcctctcatggtcctcttgcctcaaagcttgtggatattgttagccaagggcaattaatttcagacgaaattgtaatagatttgctatctaagcgtcttgaagctggagaagcaaagggtgaaacaggatttattcttgatggatttcctcgaactatacggcaggcggaaatcttagagggagtgacagacattgacttggtgattaatctgaagcttcgggaagatgcgttgattgccaagtgcttaggaagaaggacttgtagtgagtgtggaggcaattataatgttgcgtgcattgatatgaagggtgatgatggagaaactagaatgtacatgcctccccttctccctcctccgcattgtgaaaccaaacttattacacggtctgatgacactgaaaatgttgtgaaggaacgcctccgcatctaccatgaaatgagcaaaccagtagaggacttttaccgccagcgaggtaagctgttggagtttgatctccctggaggaattccagagtcatggtcaaagttacttcaggctttgaatatctacgacgacgaggataagaaatctgctgcagcatgataattgatcacttgtcttgtcagtatgtttactattgttgtaggttcattcttt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="66077" stop="57661"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65778" g_stop="65460" g_length="319"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="319" r_length="319" r_score="0.994"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65459" i_stop="63284" i_length="2176">
            <donor d_prob="0.994" 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="63283" g_stop="63143" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="320" r_stop="460" r_length="141" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="63142" i_stop="59149" i_length="3994">
            <donor d_prob="0.968" 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="59148" g_stop="58876" g_length="273"/>
          <reference_exon_boundary r_type="cDNA" r_start="461" r_stop="733" r_length="273" r_score="1.000"/>
        </exon>
        <intron i_serial="3">
          <gDNA_intron_boundary i_start="58875" i_stop="58159" i_length="717">
            <donor d_prob="1.000" d_score="1.00"/>
            <acceptor a_prob="0.999" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="4">
          <gDNA_exon_boundary g_start="58158" g_stop="57961" g_length="198"/>
          <reference_exon_boundary r_type="cDNA" r_start="734" r_stop="931" r_length="198" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E707627" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>931</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E707627" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65778" e_stop="65460"/>
          <exon e_start="63283" e_stop="63143"/>
          <exon e_start="59148" e_stop="58876"/>
          <exon e_start="58158" e_stop="57961"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAGGTTGTGCCCTTTTTGCTTTTTGAATTGTTTTGGGTTTCTATTAAATTATTATGTGTAGCTGTGAAATTTATGTGATCTTTTGCCTAGTTCCCTCGGATTTTCATATGTTTGTGAAATCTTGAAATGTTTACTCTAAGTAATTCTGGGGTTTGTATATTTGAAATTTATGTGATGGAATGGTAAAGTTCCATCTTTTGCCTAGTTCCCACGGATTTCCATATTTTTGGTAAAATCTTGAAAATTTGTGCTCCAAGTGATTCTGGGGGTTCTATTAAATTGTGTGTATCTTTGAAATTTATGGGATGGAATGGTGGTAAAGTTCCCATCTTTTGTCTATTTCCACAGATTTTCGTATCTTTGTAAAATCTTGCAAATGTAAGTCATTTTCTTTTTTCAGCTATCTCAAATCTTATCCAATTTTACTTCTATTAATCTACAATTTATTTTCTTTTTAGTATCTAAATATATTACGAAACTACTAATCTCATAGCTTATCCTACTTCTGTGCGATTGCTATGCATATGTCACCTACTTTTGCACATTACCAAGCACTAGAAATTGATCAAGACAATCATTTCCTAAGGGATATCATTTTCCTCCACTCCAGATGCAAACATCTACTGGATTTGATTTATGTGTGCATGTGTAGATACAGTAGTCAACTGAAGATTACAAATGGCTGATCTTTTAATACAAGGACCATGATACACTTAAAGGGTTCCAAATGACTGACCAAGTAAGGGATAAGTTGGAGATTTGCTGTTACCCTAGTCATTTGATTTGTTCGACTGACACTTTATAAATACAGTTCCATACAAATGCTTTATGTAATAATACTGTACCCATGAGTCAATGAAAATGCTGCAACAACTCTTATAGCATCTTATAAAGTTATGCAATAGCTAAATAATAGGGGAAGTATTTGTAAGTATGCTTGCATTAGTGGTGTGAGAGATACATTTATCAATGTTGTGAGAGATGAATATGGTATTCTCACTTTTAGATGTATATATTAGGTCTTTTACCATATAAAAAGATTCTCTTTCTTAAAAGTCAATGTAAGCTTATTTCAATGACTTTAAGATTGATCTTCCCGACTTTGGACAATGCAACCATTTTAGGAGTATGTTTAAAAAAGAATTATCATTTGGAAAGTTCTTAATGTTTGCGTAGTTAATACTTTTGTATCTTATTTGGACAGTAAATAAAAACTAGAAAAATCTTTTTTTCTGGATATCTTGTTGCTTTCACATGAAGTTCTCCTGAAAAAAAGTTACCAGTACTACAATAAAAATTATGATGATTCAACCCTAAACTAGTAGTATGCGAGACGTGACTTGGTTCCCTTTTTTGTCCTTCATATATAGGAGACATGAGTTGGTTCTATTCTTTCTTTTGGGTCCATTATTTCATTGCTCAGTAATTTTATTTTAAAGTACCTAGTAGATTTCCAAGACTAGAGATTCTCTAAATTTCAATTATCACACTTGTTCCTACACCAAAATGTAAATTTTAACCAAACTAAAAAAGCATATTGGCAGACACTGGACCAAAGGTAAGTACCAATAACCAGTTAATCTTAATTCTAACTAGTTGGTATTGCCTATATGGATCTTTGCTTCCATTGTATGTGCTCTTTGACAAAACCACATAGATTTGAGGAGATTGAAGGTATTTTGAGACAACTTTGTTCCATGTGGGATAGCTCGATCTCTGTAATGCCTTGAATCATGATAGTGTTATGCGAACAATCAGCACAATTTTAAGTACATACAACATGATTTGACCATTATGCGTTTTTCTCTCGTTGTCTCCTCGATATGTGCTACTTGCATCTTTGTCAGATATGATTATTTCTAATATCATTTATCCATCCATCTTAATTTCTATTAAATACTTATGTGTTCATATTTCTGCTGTAGTGCCTTTTAAACTGTATTTTAATAAAATAATTGTTTCTTTGATAAGTTGAAGGAAAGTCTATTTCTTAGAGGCAGTGATGATATTGTTAAAAAAAGAAAAAAGAGTCTAATTCTTAAGCTTAGATGTGAAAATATGAATTTGTATATATCTTCTTTATTGATTATGCCCTTCATTTACTCCACTGTGCCTTTTCCCCCCCTAAAGTCGTTCTACTAATTTCTTTTCTGAACTTACTTTGTGCCTTCTGTTGCAGCTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCGGTAAGCAGTTGTTTGTATAATGGATTTCCTATGTCTAGATTGATTGTTGCGCTTCTGAATAAATACTTCCCATGTTTTTTCTAGGGAATAGCTTACGAATCTAAAGAAATACTTACATATAAATGTGCATACACACACAGATATCTGTGTATTCATGTGCTATTGTCATGTTTCTTACATGTGTGTATTATTTTATTTGACGGTTGCACCTGTTGACTGGGACTTCATCTTGTGCATCTATCTACTTTAATAGGCCAATATTTTCTTTCACAGTCTGGCATCTGGCACGCAGGGGCTTGCTATGGATATAACCTAGCAAGATAATTTATTAACGTTCTAATGTCAGTACTTGAGGACTGTTTCACAACTAGCAGGGATGCATTATTATAACAGGTTAACGGTTATGGGCTTATAGCTGGACCTGCAATTGGAATGCCGCTTGCTCAAGAAAAGTTGAATATGCTGTTGAACGAAATGAATGAATAAAGTACAAAAGGTTGAAATCAACAGCAAAGCTCGATATGATTCTCTCAATAGATTGTGCGGTCTGTGAATTAAGCTCTTAGTTGAGGTGATAAGATCCTAACTAGAGTAGATATACTTCATCTTACATGAGATGCATTTTATTTGTATGATACATCAAAGTTTCTGCAAAGAGCAAAACTCTGAACTGCATAATATGTTCATCAGATATATTAGCCAATTCTTATGTTCATATGTAGATAAGGGAAAATGTCTGAGCTAACAAGAGCAAAGATCTGGCCTAAGTGTGTCATATTAGTTGTTTCTTGATTTCTTCTAGTGACACCTGATGATTGGGAGAGACCTTGTTAAACATTGACCACGGTTAACCATTCTTCAACTTTTTACAATTAGTTTCAAAATTTGAGGCATGTTTGAACAGCCATGTACATTGTCTTATATGTTCTCTTCAATTGCCACTAGAAACATTTGATATTGCTTGTCATTTTTTTGTATGTCAATGCAAGTAATGGCCTTGAAATTTCTAAATTATGTCCTCGCTAGGTTTTTCATTGCTGCGTAGTCTTTACTAACATTAACCTTTTCTCAGATGTACCTTGTTAAACGGCTTTACTTAGCTCTCAGATATCATCCACAATTGCCTCTACTTAATGGAGCATCACATCATGTACATGCTTTGATTGTTTGACTGGCATAAAATGTTGTGTCGCTACTCCTCTATGAGCATCAGCTGTAAATTTTGCTAACTAGAGAAACAATGTTGAGTATACATTCTAATTCTCTTGGACAGTCTTTGAGGCATGGTTTTATTATCTGCTTCTCTACCTTTATATGACTAGTATGAGACCACAGGGAAAGTACAATCTAAGAACTGAATGCCCTTGCTTGGGTTTTAGCTTTAATGGCCATACAATTGTGGATACTTTAGTTACAAAAGGCTCATGTGATGTATTTCAACGTATTGTGTTTGTGATTTTAACAGTCACAACTTTAGGGTTTTCTTGGACTGTTGTGGCTGTTATATGTTCCTCTGTTTTAATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTAATTAGAAGCTTAACTTCTTTATTTGGTATAATCTTTTCATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTGATTAGAAGCATCTTTCTATTGGTTCTTAATCAATATTTTGTTTGTGGATTGTTTTATGTGATGTTATGTTTATTGTATTATTGATTGCTTCACCAATGTTTATGGGATTTGACCAATTTCTAAATTTGTGGAAGCTGCCAATAATGGCAGGGGATCAATTTATCATATGTCAGAAAGATGAACTATTAGAGGATGTAGTCAACTTACTGCCTAATGTAGGATTGCAAATCTTGTAACCTACATCAAAAAGTGTAGCTCCCTTCAAAAACTTACAACATGTGCCATCTATCAGTTGCTCCTATAAGTAGTCTAAAACATCAAAAATCTCTTCTGTTTGAGCTATTAGATTCTGTTTACACCAACAATAAAAAAAGCGAGGCAGATCATCTTAAAGCCCTGTAAGTTGCTCTGCTTGTCTTCAAAACATCTCCTTTTCCTTTCCTCCCAGACTGTCCACCAAATGCAAGCAGAGACAATTTTCTATCTCTTTTCAAAACCATTTTGAGTCCTGTTGTTCAAAACTGAGAATATCACTGTGCTGATATAATGATTGGCTAAGCTGCTCGGACTCTTCACTTTTGGTGCCTCACCCATGTCGACACGACATGGGTGTGGGATCCTTGTCCGATTTGGTAAACGGATTTTTGGTACTTTGACCAAAATCGTTGGGGAAAGTCTGGACAATTTTAATTATTCCTATAATCAATACAAAAGCTAAGGTGAAATTGAAGGAAATGGAATACCTTTTATATGGAAGTTTCTATTTCACTCCTTTTCCTTTAATCTCCTTCCGGGATTCTCCTCAAGTTCTCTACATAATATGTCATAATCTGGTCTTTATAACTTTATTTTTAGATATTTTAATTATTTTAGGCGACTCCCTGCACCGTATCATACATGGATCCTATCCGGGAATCTTAAAAATTAGATCATGAAGGATCCGACCTCTAGATCCACACTTGTACACCCGCACCCGAGTCTGAGCAACTTAGATGTTTAGTCCACACAATCCATCTTGTGCCAAACCCCATTCTTTGAAGCATATGGATGAAGGAGCTCCAGTTCAAGTGATATATGTTTAGTGGATATGTAGTTTGAATAAGATACCTGGATTTAGGCTTCTTCGTCTGTTTCCCCTGCACTCAGTGGCAATTAAGATTGCATCCATGATCTTCCTCCCAATGTAAGGATCTTACATTTTTGTTTAACCCTACTCCTTTTGTTCAAAAAGGTAATATGGAAGGAAGTAAGGAACATGAGTATCCTCTTCCCCCAAGGGTAGGGAGAAACTGTTGGTAACATTAATGCTGATATCCCTTAGTTGTGTATCCTAAGGAGAGGATCCTCATGCTCTCCTGATGATTGTTTTTTGGTTGATGCACAATGTTTGAATCGATTATCTGAAGGGCAAAAATTGAACACTGATGAAGATCAATGTAATAATTTACTGAAACTTCAGGAGGCTGTAAAGTAGAGGTACGGCCAGTTATCTTTTGGCAATGCTTTATGCAAAGTCAGGACATTGATGTCTTCAGTATTCACTAGTGAAAAAAGGTTTCCTGTACTAGGGTCTAGGGCTGCTTGCAGGAGTGTCTCCACCAGTATAGAGGATCATCTTTGTTTCCCTTGTTCTTGGGACCAAAAGTTTCCAACACAAGCATTCCCCTGCCTTTCTTTCCCGGCTATGTCTGCTTCTTGCTCCCTACGGTGTAGTAAAAGTCTGTTTCATGTGGTGTCATGGACCTGTATTCTCAGTCTCTTCTACTTTTTGATACTAAGACGTGGACCCTTGCTCCCTGAATTTGGCTGGTCTGGTCATATCTTTTGTTGCCATCAGAATAACTCATATGATTACTAAGTTCTGGTAACAAATTAGAATCCATGGGCAAACGCTGAAGCTTATGGTCTTATGTTTGAAGGCTAAATTATTTATATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATTTGGAATTTTATTTCCCCTATAATTGGATCTAGAGATGAAACAGATCTGATATGTGTACAGGTCCAAGCAGTGAATTATCAACAGTGTAAGTACTGCTCCCTGATAGTGGCTAAGCTGCTTTGTGCACTGAAATTAATAATTTTTTTTCCTCCTTTAACTAGATATAGACGGCATTTTCTCTGATCCTGTCATATGTGTTATTTGGTTATTTAGGAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAAGGACTTGTAGTGAGTGTGGAGGCAATTATAATGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCCTCCCCTTCTCCCTCCTCCGCATTGTGAAACCAAACTTATTACACGGTCTGATGACACTGAAAATGTTGTGAAGGAACGCCTCCGCATCTACCATGAAATGGTATGATCTACTTTTCTCTTATTTATTGTTTCTCGCTTTGTGCAAGCGTTCTCTTCATGTACTTGACTGGTGAGTATACCCCATTCCTACGTTACAACTTCTTCACACTTCCGTAGACAACAAAAATCTGTGCCATTCACAACTCAAGAATTGATAATTCTGAGCACTTATGATGTGTTTTACAAGCAGATCATCAAATCATTTACCCAAATTTTTGTGTTTTCTTGTAGTACGTCAAATCGGAAGATAATCACTGTTTTTGTCATCTGTATACAGTCAAAAGTGGCATTGAGATACTCTATAACCCTTTAGTTTTTTTTCCTCCTGTCCTCTATTTAGCCTGTCTCGACTAGTTTGGGGTTGAAGTATAGTTGATTGGTTGGATTGCCCTAGAGTTGCTATTGCATCTGATCCTTCCAAAGTGGCTTCTTTTGTCAATATGTGCATTTCTTTTGTGCAGTGGTTACTAACCTATTGTTGTATTTCCTGTAACTGTGTTTTTTCTCCCCAGACCCCAGATCCTCATTTGTTTTTTAGGACGAGATGGTACAAACTTAATTCTCAGTTAGCTACTGTGACCACATTCATAATTTACTTTCCTAAATGCTTGCCCACAAAGATAGGGATAAAGTCTACGTATATCCTACCCTCTCCAGACTTACACTAGCTATGTTGTTGTAACATACTAACTGCTTAGGTATTATGTTGTTCCTGCAGAGCAAACCAGTAGAGGACTTTTACCGCCAGCGAGGTAAGCTGTTGGAGTTTGATCTCCCTGGAGGAATTCCAGAGTCATGGTCAAAGTTACTTCAGGCTTTGAATATCTACGACGACGAGGATAAGAAATCTGCTGCAGCATGATAATTGATCACTTGTCTTGTCAGTATGTTTACTATTGTTGTAGGTTCATTCTTT</genome_strand>
        <mrna_strand>CATTACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAAGGACTTGTAGTGAGTGTGGAGGCAATTATAATGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCCTCCCCTTCTCCCTCCTCCGCATTGTGAAACCAAACTTATTACACGGTCTGATGACACTGAAAATGTTGTGAAGGAACGCCTCCGCATCTACCATGAAATG.............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AGCAAACCAGTAGAGGACTTTTACCGCCAGCGAGGTAAGCTGTTGGAGTTTGATCTCCCTGGAGGAATTCCAGAGTCATGGTCAAAGTTACTTCAGGCTTTGAATATCTACGACGACGAGGATAAGAAATCTGCTGCAGCATGATAATTGATCACTTGTCTTGTCAGTATGTTTACTATTGTTGTAGGTTCATTCTTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E320543" ref_strand="+" ref_description="SGN-E320543 [cTOB-22-E10]">
      <seq>aaagggtaaagatccattgattaactatggtggtttggacccgtgcagtggtaagaacatggagatgtagacccaccaattttagccgggctttttctgaaaaattacctacatcggagcctaagggcagaaatattcagtgggtattcctgggttgccctggtgtcggaaaagggacttatgcagctcgactttctaagcttcttggcgtaccccacatagctactggtgatctcgtccgtcaacaattatcctctcatggtcctcttgcctcaaagcttgtggatattgttagccaagggcaattaatttcagacgaaattgtaatagatttgctatctaagcgtcttgaagctggagaagcaaagggtgaaacaggatttattcttgatggatttcctcgaactatacggcaggcggaaatcttagagggagtgacagacattgacttggtgattaatctgaagcttcgggaagatgcgttgattgccaagtgcttangaagaaggacttgtagtgagtgtgganggcattataatgttgcgtgcattgatatgaagggtgatgatggagaaactanaatgtacatgcctcccct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="66037" stop="58670"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65737" g_stop="65460" g_length="278"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="278" r_length="278" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65459" i_stop="63284" i_length="2176">
            <donor d_prob="0.994" 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="63283" g_stop="63143" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="279" r_stop="419" r_length="141" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="63142" i_stop="59149" i_length="3994">
            <donor d_prob="0.968" 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="59148" g_stop="58970" g_length="179"/>
          <reference_exon_boundary r_type="cDNA" r_start="420" r_stop="598" r_length="179" r_score="0.972"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E320543" ref_strand="+">
        <total_alignment_score>0.992</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="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E320543" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65737" e_stop="65460"/>
          <exon e_start="63283" e_stop="63143"/>
          <exon e_start="59148" e_stop="58970"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAGGTTGTGCCCTTTTTGCTTTTTGAATTGTTTTGGGTTTCTATTAAATTATTATGTGTAGCTGTGAAATTTATGTGATCTTTTGCCTAGTTCCCTCGGATTTTCATATGTTTGTGAAATCTTGAAATGTTTACTCTAAGTAATTCTGGGGTTTGTATATTTGAAATTTATGTGATGGAATGGTAAAGTTCCATCTTTTGCCTAGTTCCCACGGATTTCCATATTTTTGGTAAAATCTTGAAAATTTGTGCTCCAAGTGATTCTGGGGGTTCTATTAAATTGTGTGTATCTTTGAAATTTATGGGATGGAATGGTGGTAAAGTTCCCATCTTTTGTCTATTTCCACAGATTTTCGTATCTTTGTAAAATCTTGCAAATGTAAGTCATTTTCTTTTTTCAGCTATCTCAAATCTTATCCAATTTTACTTCTATTAATCTACAATTTATTTTCTTTTTAGTATCTAAATATATTACGAAACTACTAATCTCATAGCTTATCCTACTTCTGTGCGATTGCTATGCATATGTCACCTACTTTTGCACATTACCAAGCACTAGAAATTGATCAAGACAATCATTTCCTAAGGGATATCATTTTCCTCCACTCCAGATGCAAACATCTACTGGATTTGATTTATGTGTGCATGTGTAGATACAGTAGTCAACTGAAGATTACAAATGGCTGATCTTTTAATACAAGGACCATGATACACTTAAAGGGTTCCAAATGACTGACCAAGTAAGGGATAAGTTGGAGATTTGCTGTTACCCTAGTCATTTGATTTGTTCGACTGACACTTTATAAATACAGTTCCATACAAATGCTTTATGTAATAATACTGTACCCATGAGTCAATGAAAATGCTGCAACAACTCTTATAGCATCTTATAAAGTTATGCAATAGCTAAATAATAGGGGAAGTATTTGTAAGTATGCTTGCATTAGTGGTGTGAGAGATACATTTATCAATGTTGTGAGAGATGAATATGGTATTCTCACTTTTAGATGTATATATTAGGTCTTTTACCATATAAAAAGATTCTCTTTCTTAAAAGTCAATGTAAGCTTATTTCAATGACTTTAAGATTGATCTTCCCGACTTTGGACAATGCAACCATTTTAGGAGTATGTTTAAAAAAGAATTATCATTTGGAAAGTTCTTAATGTTTGCGTAGTTAATACTTTTGTATCTTATTTGGACAGTAAATAAAAACTAGAAAAATCTTTTTTTCTGGATATCTTGTTGCTTTCACATGAAGTTCTCCTGAAAAAAAGTTACCAGTACTACAATAAAAATTATGATGATTCAACCCTAAACTAGTAGTATGCGAGACGTGACTTGGTTCCCTTTTTTGTCCTTCATATATAGGAGACATGAGTTGGTTCTATTCTTTCTTTTGGGTCCATTATTTCATTGCTCAGTAATTTTATTTTAAAGTACCTAGTAGATTTCCAAGACTAGAGATTCTCTAAATTTCAATTATCACACTTGTTCCTACACCAAAATGTAAATTTTAACCAAACTAAAAAAGCATATTGGCAGACACTGGACCAAAGGTAAGTACCAATAACCAGTTAATCTTAATTCTAACTAGTTGGTATTGCCTATATGGATCTTTGCTTCCATTGTATGTGCTCTTTGACAAAACCACATAGATTTGAGGAGATTGAAGGTATTTTGAGACAACTTTGTTCCATGTGGGATAGCTCGATCTCTGTAATGCCTTGAATCATGATAGTGTTATGCGAACAATCAGCACAATTTTAAGTACATACAACATGATTTGACCATTATGCGTTTTTCTCTCGTTGTCTCCTCGATATGTGCTACTTGCATCTTTGTCAGATATGATTATTTCTAATATCATTTATCCATCCATCTTAATTTCTATTAAATACTTATGTGTTCATATTTCTGCTGTAGTGCCTTTTAAACTGTATTTTAATAAAATAATTGTTTCTTTGATAAGTTGAAGGAAAGTCTATTTCTTAGAGGCAGTGATGATATTGTTAAAAAAAGAAAAAAGAGTCTAATTCTTAAGCTTAGATGTGAAAATATGAATTTGTATATATCTTCTTTATTGATTATGCCCTTCATTTACTCCACTGTGCCTTTTCCCCCCCTAAAGTCGTTCTACTAATTTCTTTTCTGAACTTACTTTGTGCCTTCTGTTGCAGCTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCGGTAAGCAGTTGTTTGTATAATGGATTTCCTATGTCTAGATTGATTGTTGCGCTTCTGAATAAATACTTCCCATGTTTTTTCTAGGGAATAGCTTACGAATCTAAAGAAATACTTACATATAAATGTGCATACACACACAGATATCTGTGTATTCATGTGCTATTGTCATGTTTCTTACATGTGTGTATTATTTTATTTGACGGTTGCACCTGTTGACTGGGACTTCATCTTGTGCATCTATCTACTTTAATAGGCCAATATTTTCTTTCACAGTCTGGCATCTGGCACGCAGGGGCTTGCTATGGATATAACCTAGCAAGATAATTTATTAACGTTCTAATGTCAGTACTTGAGGACTGTTTCACAACTAGCAGGGATGCATTATTATAACAGGTTAACGGTTATGGGCTTATAGCTGGACCTGCAATTGGAATGCCGCTTGCTCAAGAAAAGTTGAATATGCTGTTGAACGAAATGAATGAATAAAGTACAAAAGGTTGAAATCAACAGCAAAGCTCGATATGATTCTCTCAATAGATTGTGCGGTCTGTGAATTAAGCTCTTAGTTGAGGTGATAAGATCCTAACTAGAGTAGATATACTTCATCTTACATGAGATGCATTTTATTTGTATGATACATCAAAGTTTCTGCAAAGAGCAAAACTCTGAACTGCATAATATGTTCATCAGATATATTAGCCAATTCTTATGTTCATATGTAGATAAGGGAAAATGTCTGAGCTAACAAGAGCAAAGATCTGGCCTAAGTGTGTCATATTAGTTGTTTCTTGATTTCTTCTAGTGACACCTGATGATTGGGAGAGACCTTGTTAAACATTGACCACGGTTAACCATTCTTCAACTTTTTACAATTAGTTTCAAAATTTGAGGCATGTTTGAACAGCCATGTACATTGTCTTATATGTTCTCTTCAATTGCCACTAGAAACATTTGATATTGCTTGTCATTTTTTTGTATGTCAATGCAAGTAATGGCCTTGAAATTTCTAAATTATGTCCTCGCTAGGTTTTTCATTGCTGCGTAGTCTTTACTAACATTAACCTTTTCTCAGATGTACCTTGTTAAACGGCTTTACTTAGCTCTCAGATATCATCCACAATTGCCTCTACTTAATGGAGCATCACATCATGTACATGCTTTGATTGTTTGACTGGCATAAAATGTTGTGTCGCTACTCCTCTATGAGCATCAGCTGTAAATTTTGCTAACTAGAGAAACAATGTTGAGTATACATTCTAATTCTCTTGGACAGTCTTTGAGGCATGGTTTTATTATCTGCTTCTCTACCTTTATATGACTAGTATGAGACCACAGGGAAAGTACAATCTAAGAACTGAATGCCCTTGCTTGGGTTTTAGCTTTAATGGCCATACAATTGTGGATACTTTAGTTACAAAAGGCTCATGTGATGTATTTCAACGTATTGTGTTTGTGATTTTAACAGTCACAACTTTAGGGTTTTCTTGGACTGTTGTGGCTGTTATATGTTCCTCTGTTTTAATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTAATTAGAAGCTTAACTTCTTTATTTGGTATAATCTTTTCATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTGATTAGAAGCATCTTTCTATTGGTTCTTAATCAATATTTTGTTTGTGGATTGTTTTATGTGATGTTATGTTTATTGTATTATTGATTGCTTCACCAATGTTTATGGGATTTGACCAATTTCTAAATTTGTGGAAGCTGCCAATAATGGCAGGGGATCAATTTATCATATGTCAGAAAGATGAACTATTAGAGGATGTAGTCAACTTACTGCCTAATGTAGGATTGCAAATCTTGTAACCTACATCAAAAAGTGTAGCTCCCTTCAAAAACTTACAACATGTGCCATCTATCAGTTGCTCCTATAAGTAGTCTAAAACATCAAAAATCTCTTCTGTTTGAGCTATTAGATTCTGTTTACACCAACAATAAAAAAAGCGAGGCAGATCATCTTAAAGCCCTGTAAGTTGCTCTGCTTGTCTTCAAAACATCTCCTTTTCCTTTCCTCCCAGACTGTCCACCAAATGCAAGCAGAGACAATTTTCTATCTCTTTTCAAAACCATTTTGAGTCCTGTTGTTCAAAACTGAGAATATCACTGTGCTGATATAATGATTGGCTAAGCTGCTCGGACTCTTCACTTTTGGTGCCTCACCCATGTCGACACGACATGGGTGTGGGATCCTTGTCCGATTTGGTAAACGGATTTTTGGTACTTTGACCAAAATCGTTGGGGAAAGTCTGGACAATTTTAATTATTCCTATAATCAATACAAAAGCTAAGGTGAAATTGAAGGAAATGGAATACCTTTTATATGGAAGTTTCTATTTCACTCCTTTTCCTTTAATCTCCTTCCGGGATTCTCCTCAAGTTCTCTACATAATATGTCATAATCTGGTCTTTATAACTTTATTTTTAGATATTTTAATTATTTTAGGCGACTCCCTGCACCGTATCATACATGGATCCTATCCGGGAATCTTAAAAATTAGATCATGAAGGATCCGACCTCTAGATCCACACTTGTACACCCGCACCCGAGTCTGAGCAACTTAGATGTTTAGTCCACACAATCCATCTTGTGCCAAACCCCATTCTTTGAAGCATATGGATGAAGGAGCTCCAGTTCAAGTGATATATGTTTAGTGGATATGTAGTTTGAATAAGATACCTGGATTTAGGCTTCTTCGTCTGTTTCCCCTGCACTCAGTGGCAATTAAGATTGCATCCATGATCTTCCTCCCAATGTAAGGATCTTACATTTTTGTTTAACCCTACTCCTTTTGTTCAAAAAGGTAATATGGAAGGAAGTAAGGAACATGAGTATCCTCTTCCCCCAAGGGTAGGGAGAAACTGTTGGTAACATTAATGCTGATATCCCTTAGTTGTGTATCCTAAGGAGAGGATCCTCATGCTCTCCTGATGATTGTTTTTTGGTTGATGCACAATGTTTGAATCGATTATCTGAAGGGCAAAAATTGAACACTGATGAAGATCAATGTAATAATTTACTGAAACTTCAGGAGGCTGTAAAGTAGAGGTACGGCCAGTTATCTTTTGGCAATGCTTTATGCAAAGTCAGGACATTGATGTCTTCAGTATTCACTAGTGAAAAAAGGTTTCCTGTACTAGGGTCTAGGGCTGCTTGCAGGAGTGTCTCCACCAGTATAGAGGATCATCTTTGTTTCCCTTGTTCTTGGGACCAAAAGTTTCCAACACAAGCATTCCCCTGCCTTTCTTTCCCGGCTATGTCTGCTTCTTGCTCCCTACGGTGTAGTAAAAGTCTGTTTCATGTGGTGTCATGGACCTGTATTCTCAGTCTCTTCTACTTTTTGATACTAAGACGTGGACCCTTGCTCCCTGAATTTGGCTGGTCTGGTCATATCTTTTGTTGCCATCAGAATAACTCATATGATTACTAAGTTCTGGTAACAAATTAGAATCCATGGGCAAACGCTGAAGCTTATGGTCTTATGTTTGAAGGCTAAATTATTTATATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATTTGGAATTTTATTTCCCCTATAATTGGATCTAGAGATGAAACAGATCTGATATGTGTACAGGTCCAAGCAGTGAATTATCAACAGTGTAAGTACTGCTCCCTGATAGTGGCTAAGCTGCTTTGTGCACTGAAATTAATAATTTTTTTTCCTCCTTTAACTAGATATAGACGGCATTTTCTCTGATCCTGTCATATGTGTTATTTGGTTATTTAGGAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAAGGACTTGTAGTGAGTGTGGAGGCAATTATAATGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCCTCCCCT</genome_strand>
        <mrna_strand>AAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTANGAAGAAGGACTTGTAGTGAGTGTGGANGGCATTATAATGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTANAATGTACATGCCTCCCCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E343462" ref_strand="+" ref_description="SGN-E343462 [cTOF-19-A5]">
      <seq>tcaaacccccattttcccttttccttttccccaccctcctctttcattttcctcttttcctttcctcaatcactcttacttcaattcaattcaatcattaatctcacaaaagggtaaagatccattgattaactatggtggtttggacccgtgcagtggtaagaacatggagatgtagacccaccaattttagccgggctttttctgaaaaattacctacatcggagcctaagggcagaaatattcagtgggtattcctgggttgccctggtgtcggaaaagggacttatgcagctcgactttctaagcttcttggcgtaccccacatagctactggtgatctcgtccgtcaacaattatcctctcatggtcctcttgcctcaaagcttgtggatattgttagccaagggcaattaatttcagacgaaattgtaatagatttgctatctaagcgtcttgaagctggagaagcaaagggtgaaacaggatttattcttgatggatttcctcgaactatacggcaggcggaaatcttagagggagtgacagacattgacttggtgattaatctgaagcttcgggaagatgcgttgattgccaagtgcttaggaagaangacttgtagtgagtgtggaggcaattataatggttgcgtgcattgatatgaagggtgatgatggagaaactagaatgtacatgcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="66145" stop="58676"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65845" g_stop="65460" g_length="386"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="386" r_length="386" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65459" i_stop="63284" i_length="2176">
            <donor d_prob="0.994" 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="63283" g_stop="63143" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="387" r_stop="527" r_length="141" r_score="1.000"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="63142" i_stop="59149" i_length="3994">
            <donor d_prob="0.968" 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="59148" g_stop="58976" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="528" r_stop="701" r_length="174" r_score="0.983"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E343462" ref_strand="+">
        <total_alignment_score>0.996</total_alignment_score>
        <cumulative_length_of_scored_exons>700</cumulative_length_of_scored_exons>
        <coverage percentage="0.999" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E343462" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65845" e_stop="65460"/>
          <exon e_start="63283" e_stop="63143"/>
          <exon e_start="59148" e_stop="58976"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCAAACCCCCATTTTCCCTTTTCCTTTTCCCCACCCTCCTCTTTCATTTTCCTCTTTTCCTTTCCTCAATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAGGTTGTGCCCTTTTTGCTTTTTGAATTGTTTTGGGTTTCTATTAAATTATTATGTGTAGCTGTGAAATTTATGTGATCTTTTGCCTAGTTCCCTCGGATTTTCATATGTTTGTGAAATCTTGAAATGTTTACTCTAAGTAATTCTGGGGTTTGTATATTTGAAATTTATGTGATGGAATGGTAAAGTTCCATCTTTTGCCTAGTTCCCACGGATTTCCATATTTTTGGTAAAATCTTGAAAATTTGTGCTCCAAGTGATTCTGGGGGTTCTATTAAATTGTGTGTATCTTTGAAATTTATGGGATGGAATGGTGGTAAAGTTCCCATCTTTTGTCTATTTCCACAGATTTTCGTATCTTTGTAAAATCTTGCAAATGTAAGTCATTTTCTTTTTTCAGCTATCTCAAATCTTATCCAATTTTACTTCTATTAATCTACAATTTATTTTCTTTTTAGTATCTAAATATATTACGAAACTACTAATCTCATAGCTTATCCTACTTCTGTGCGATTGCTATGCATATGTCACCTACTTTTGCACATTACCAAGCACTAGAAATTGATCAAGACAATCATTTCCTAAGGGATATCATTTTCCTCCACTCCAGATGCAAACATCTACTGGATTTGATTTATGTGTGCATGTGTAGATACAGTAGTCAACTGAAGATTACAAATGGCTGATCTTTTAATACAAGGACCATGATACACTTAAAGGGTTCCAAATGACTGACCAAGTAAGGGATAAGTTGGAGATTTGCTGTTACCCTAGTCATTTGATTTGTTCGACTGACACTTTATAAATACAGTTCCATACAAATGCTTTATGTAATAATACTGTACCCATGAGTCAATGAAAATGCTGCAACAACTCTTATAGCATCTTATAAAGTTATGCAATAGCTAAATAATAGGGGAAGTATTTGTAAGTATGCTTGCATTAGTGGTGTGAGAGATACATTTATCAATGTTGTGAGAGATGAATATGGTATTCTCACTTTTAGATGTATATATTAGGTCTTTTACCATATAAAAAGATTCTCTTTCTTAAAAGTCAATGTAAGCTTATTTCAATGACTTTAAGATTGATCTTCCCGACTTTGGACAATGCAACCATTTTAGGAGTATGTTTAAAAAAGAATTATCATTTGGAAAGTTCTTAATGTTTGCGTAGTTAATACTTTTGTATCTTATTTGGACAGTAAATAAAAACTAGAAAAATCTTTTTTTCTGGATATCTTGTTGCTTTCACATGAAGTTCTCCTGAAAAAAAGTTACCAGTACTACAATAAAAATTATGATGATTCAACCCTAAACTAGTAGTATGCGAGACGTGACTTGGTTCCCTTTTTTGTCCTTCATATATAGGAGACATGAGTTGGTTCTATTCTTTCTTTTGGGTCCATTATTTCATTGCTCAGTAATTTTATTTTAAAGTACCTAGTAGATTTCCAAGACTAGAGATTCTCTAAATTTCAATTATCACACTTGTTCCTACACCAAAATGTAAATTTTAACCAAACTAAAAAAGCATATTGGCAGACACTGGACCAAAGGTAAGTACCAATAACCAGTTAATCTTAATTCTAACTAGTTGGTATTGCCTATATGGATCTTTGCTTCCATTGTATGTGCTCTTTGACAAAACCACATAGATTTGAGGAGATTGAAGGTATTTTGAGACAACTTTGTTCCATGTGGGATAGCTCGATCTCTGTAATGCCTTGAATCATGATAGTGTTATGCGAACAATCAGCACAATTTTAAGTACATACAACATGATTTGACCATTATGCGTTTTTCTCTCGTTGTCTCCTCGATATGTGCTACTTGCATCTTTGTCAGATATGATTATTTCTAATATCATTTATCCATCCATCTTAATTTCTATTAAATACTTATGTGTTCATATTTCTGCTGTAGTGCCTTTTAAACTGTATTTTAATAAAATAATTGTTTCTTTGATAAGTTGAAGGAAAGTCTATTTCTTAGAGGCAGTGATGATATTGTTAAAAAAAGAAAAAAGAGTCTAATTCTTAAGCTTAGATGTGAAAATATGAATTTGTATATATCTTCTTTATTGATTATGCCCTTCATTTACTCCACTGTGCCTTTTCCCCCCCTAAAGTCGTTCTACTAATTTCTTTTCTGAACTTACTTTGTGCCTTCTGTTGCAGCTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCGGTAAGCAGTTGTTTGTATAATGGATTTCCTATGTCTAGATTGATTGTTGCGCTTCTGAATAAATACTTCCCATGTTTTTTCTAGGGAATAGCTTACGAATCTAAAGAAATACTTACATATAAATGTGCATACACACACAGATATCTGTGTATTCATGTGCTATTGTCATGTTTCTTACATGTGTGTATTATTTTATTTGACGGTTGCACCTGTTGACTGGGACTTCATCTTGTGCATCTATCTACTTTAATAGGCCAATATTTTCTTTCACAGTCTGGCATCTGGCACGCAGGGGCTTGCTATGGATATAACCTAGCAAGATAATTTATTAACGTTCTAATGTCAGTACTTGAGGACTGTTTCACAACTAGCAGGGATGCATTATTATAACAGGTTAACGGTTATGGGCTTATAGCTGGACCTGCAATTGGAATGCCGCTTGCTCAAGAAAAGTTGAATATGCTGTTGAACGAAATGAATGAATAAAGTACAAAAGGTTGAAATCAACAGCAAAGCTCGATATGATTCTCTCAATAGATTGTGCGGTCTGTGAATTAAGCTCTTAGTTGAGGTGATAAGATCCTAACTAGAGTAGATATACTTCATCTTACATGAGATGCATTTTATTTGTATGATACATCAAAGTTTCTGCAAAGAGCAAAACTCTGAACTGCATAATATGTTCATCAGATATATTAGCCAATTCTTATGTTCATATGTAGATAAGGGAAAATGTCTGAGCTAACAAGAGCAAAGATCTGGCCTAAGTGTGTCATATTAGTTGTTTCTTGATTTCTTCTAGTGACACCTGATGATTGGGAGAGACCTTGTTAAACATTGACCACGGTTAACCATTCTTCAACTTTTTACAATTAGTTTCAAAATTTGAGGCATGTTTGAACAGCCATGTACATTGTCTTATATGTTCTCTTCAATTGCCACTAGAAACATTTGATATTGCTTGTCATTTTTTTGTATGTCAATGCAAGTAATGGCCTTGAAATTTCTAAATTATGTCCTCGCTAGGTTTTTCATTGCTGCGTAGTCTTTACTAACATTAACCTTTTCTCAGATGTACCTTGTTAAACGGCTTTACTTAGCTCTCAGATATCATCCACAATTGCCTCTACTTAATGGAGCATCACATCATGTACATGCTTTGATTGTTTGACTGGCATAAAATGTTGTGTCGCTACTCCTCTATGAGCATCAGCTGTAAATTTTGCTAACTAGAGAAACAATGTTGAGTATACATTCTAATTCTCTTGGACAGTCTTTGAGGCATGGTTTTATTATCTGCTTCTCTACCTTTATATGACTAGTATGAGACCACAGGGAAAGTACAATCTAAGAACTGAATGCCCTTGCTTGGGTTTTAGCTTTAATGGCCATACAATTGTGGATACTTTAGTTACAAAAGGCTCATGTGATGTATTTCAACGTATTGTGTTTGTGATTTTAACAGTCACAACTTTAGGGTTTTCTTGGACTGTTGTGGCTGTTATATGTTCCTCTGTTTTAATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTAATTAGAAGCTTAACTTCTTTATTTGGTATAATCTTTTCATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTGATTAGAAGCATCTTTCTATTGGTTCTTAATCAATATTTTGTTTGTGGATTGTTTTATGTGATGTTATGTTTATTGTATTATTGATTGCTTCACCAATGTTTATGGGATTTGACCAATTTCTAAATTTGTGGAAGCTGCCAATAATGGCAGGGGATCAATTTATCATATGTCAGAAAGATGAACTATTAGAGGATGTAGTCAACTTACTGCCTAATGTAGGATTGCAAATCTTGTAACCTACATCAAAAAGTGTAGCTCCCTTCAAAAACTTACAACATGTGCCATCTATCAGTTGCTCCTATAAGTAGTCTAAAACATCAAAAATCTCTTCTGTTTGAGCTATTAGATTCTGTTTACACCAACAATAAAAAAAGCGAGGCAGATCATCTTAAAGCCCTGTAAGTTGCTCTGCTTGTCTTCAAAACATCTCCTTTTCCTTTCCTCCCAGACTGTCCACCAAATGCAAGCAGAGACAATTTTCTATCTCTTTTCAAAACCATTTTGAGTCCTGTTGTTCAAAACTGAGAATATCACTGTGCTGATATAATGATTGGCTAAGCTGCTCGGACTCTTCACTTTTGGTGCCTCACCCATGTCGACACGACATGGGTGTGGGATCCTTGTCCGATTTGGTAAACGGATTTTTGGTACTTTGACCAAAATCGTTGGGGAAAGTCTGGACAATTTTAATTATTCCTATAATCAATACAAAAGCTAAGGTGAAATTGAAGGAAATGGAATACCTTTTATATGGAAGTTTCTATTTCACTCCTTTTCCTTTAATCTCCTTCCGGGATTCTCCTCAAGTTCTCTACATAATATGTCATAATCTGGTCTTTATAACTTTATTTTTAGATATTTTAATTATTTTAGGCGACTCCCTGCACCGTATCATACATGGATCCTATCCGGGAATCTTAAAAATTAGATCATGAAGGATCCGACCTCTAGATCCACACTTGTACACCCGCACCCGAGTCTGAGCAACTTAGATGTTTAGTCCACACAATCCATCTTGTGCCAAACCCCATTCTTTGAAGCATATGGATGAAGGAGCTCCAGTTCAAGTGATATATGTTTAGTGGATATGTAGTTTGAATAAGATACCTGGATTTAGGCTTCTTCGTCTGTTTCCCCTGCACTCAGTGGCAATTAAGATTGCATCCATGATCTTCCTCCCAATGTAAGGATCTTACATTTTTGTTTAACCCTACTCCTTTTGTTCAAAAAGGTAATATGGAAGGAAGTAAGGAACATGAGTATCCTCTTCCCCCAAGGGTAGGGAGAAACTGTTGGTAACATTAATGCTGATATCCCTTAGTTGTGTATCCTAAGGAGAGGATCCTCATGCTCTCCTGATGATTGTTTTTTGGTTGATGCACAATGTTTGAATCGATTATCTGAAGGGCAAAAATTGAACACTGATGAAGATCAATGTAATAATTTACTGAAACTTCAGGAGGCTGTAAAGTAGAGGTACGGCCAGTTATCTTTTGGCAATGCTTTATGCAAAGTCAGGACATTGATGTCTTCAGTATTCACTAGTGAAAAAAGGTTTCCTGTACTAGGGTCTAGGGCTGCTTGCAGGAGTGTCTCCACCAGTATAGAGGATCATCTTTGTTTCCCTTGTTCTTGGGACCAAAAGTTTCCAACACAAGCATTCCCCTGCCTTTCTTTCCCGGCTATGTCTGCTTCTTGCTCCCTACGGTGTAGTAAAAGTCTGTTTCATGTGGTGTCATGGACCTGTATTCTCAGTCTCTTCTACTTTTTGATACTAAGACGTGGACCCTTGCTCCCTGAATTTGGCTGGTCTGGTCATATCTTTTGTTGCCATCAGAATAACTCATATGATTACTAAGTTCTGGTAACAAATTAGAATCCATGGGCAAACGCTGAAGCTTATGGTCTTATGTTTGAAGGCTAAATTATTTATATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATTTGGAATTTTATTTCCCCTATAATTGGATCTAGAGATGAAACAGATCTGATATGTGTACAGGTCCAAGCAGTGAATTATCAACAGTGTAAGTACTGCTCCCTGATAGTGGCTAAGCTGCTTTGTGCACTGAAATTAATAATTTTTTTTCCTCCTTTAACTAGATATAGACGGCATTTTCTCTGATCCTGTCATATGTGTTATTTGGTTATTTAGGAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAAGGACTTGTAGTGAGTGTGGAGGCAATTATAAT-GTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCC</genome_strand>
        <mrna_strand>TCAAACCCCCATTTTCCCTTTTCCTTTTCCCCACCCTCCTCTTTCATTTTCCTCTTTTCCTTTCCTCAATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCG..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAANGACTTGTAGTGAGTGTGGAGGCAATTATAATGGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E292011" ref_strand="+" ref_description="SGN-E292011 [cLET-7-J3]">
      <seq>cttgctgacatctttcatggtcggcattgtcaaacccccattttcccttttccttttccccacccacctctttcattttcctcttttcctttcctcaatcactcttacttcaattcaattcaatcattaatctcacaaaagggtaaagatccattgattaactatggtggtttggacccgtgcagtggtaagaacatggagatgtagacccaccaattttagccgggctttttctgaaaaattacctacatcggagcctaagggcagaaatattcagtgggtattcctgggttgccctggtgtcggaaaagggacttatgcagctcgactttctaagcttcttggcgtaccccacatagctactggtgatctcgtccgtcaacaattatcctctcatggtcctcttgcctcaaagcttgtggatattgttagccaagggcaattaatttcagacgaaattgtaatagatttgctatctaagcgtcttgaagctggagaagcaaagggtgtaacaggatttattcttgatggatttcctcgaactatacggcaggcgaaatcttagagggagtgacagacattgacttggtgattaatctga</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="66174" stop="58803"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="65874" g_stop="65460" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="415" r_length="415" r_score="0.998"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="65459" i_stop="63284" i_length="2176">
            <donor d_prob="0.994" 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="63283" g_stop="63143" g_length="141"/>
          <reference_exon_boundary r_type="cDNA" r_start="416" r_stop="555" r_length="140" r_score="0.986"/>
        </exon>
        <intron i_serial="2">
          <gDNA_intron_boundary i_start="63142" i_stop="59149" i_length="3994">
            <donor d_prob="0.968" d_score="0.96"/>
            <acceptor a_prob="0.998" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="3">
          <gDNA_exon_boundary g_start="59148" g_stop="59103" g_length="46"/>
          <reference_exon_boundary r_type="cDNA" r_start="556" r_stop="601" r_length="46" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E292011" ref_strand="+">
        <total_alignment_score>0.995</total_alignment_score>
        <cumulative_length_of_scored_exons>602</cumulative_length_of_scored_exons>
        <coverage percentage="1.002" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E292011" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="65874" e_stop="65460"/>
          <exon e_start="63283" e_stop="63143"/>
          <exon e_start="59148" e_stop="59103"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTGCTGACATCTTTCATGGTCGGCATTGTCAAACCCCCATTTTCCCTTTTCCTTTTCCCCACCCTCCTCTTTCATTTTCCTCTTTTCCTTTCCTCAATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAGGTTGTGCCCTTTTTGCTTTTTGAATTGTTTTGGGTTTCTATTAAATTATTATGTGTAGCTGTGAAATTTATGTGATCTTTTGCCTAGTTCCCTCGGATTTTCATATGTTTGTGAAATCTTGAAATGTTTACTCTAAGTAATTCTGGGGTTTGTATATTTGAAATTTATGTGATGGAATGGTAAAGTTCCATCTTTTGCCTAGTTCCCACGGATTTCCATATTTTTGGTAAAATCTTGAAAATTTGTGCTCCAAGTGATTCTGGGGGTTCTATTAAATTGTGTGTATCTTTGAAATTTATGGGATGGAATGGTGGTAAAGTTCCCATCTTTTGTCTATTTCCACAGATTTTCGTATCTTTGTAAAATCTTGCAAATGTAAGTCATTTTCTTTTTTCAGCTATCTCAAATCTTATCCAATTTTACTTCTATTAATCTACAATTTATTTTCTTTTTAGTATCTAAATATATTACGAAACTACTAATCTCATAGCTTATCCTACTTCTGTGCGATTGCTATGCATATGTCACCTACTTTTGCACATTACCAAGCACTAGAAATTGATCAAGACAATCATTTCCTAAGGGATATCATTTTCCTCCACTCCAGATGCAAACATCTACTGGATTTGATTTATGTGTGCATGTGTAGATACAGTAGTCAACTGAAGATTACAAATGGCTGATCTTTTAATACAAGGACCATGATACACTTAAAGGGTTCCAAATGACTGACCAAGTAAGGGATAAGTTGGAGATTTGCTGTTACCCTAGTCATTTGATTTGTTCGACTGACACTTTATAAATACAGTTCCATACAAATGCTTTATGTAATAATACTGTACCCATGAGTCAATGAAAATGCTGCAACAACTCTTATAGCATCTTATAAAGTTATGCAATAGCTAAATAATAGGGGAAGTATTTGTAAGTATGCTTGCATTAGTGGTGTGAGAGATACATTTATCAATGTTGTGAGAGATGAATATGGTATTCTCACTTTTAGATGTATATATTAGGTCTTTTACCATATAAAAAGATTCTCTTTCTTAAAAGTCAATGTAAGCTTATTTCAATGACTTTAAGATTGATCTTCCCGACTTTGGACAATGCAACCATTTTAGGAGTATGTTTAAAAAAGAATTATCATTTGGAAAGTTCTTAATGTTTGCGTAGTTAATACTTTTGTATCTTATTTGGACAGTAAATAAAAACTAGAAAAATCTTTTTTTCTGGATATCTTGTTGCTTTCACATGAAGTTCTCCTGAAAAAAAGTTACCAGTACTACAATAAAAATTATGATGATTCAACCCTAAACTAGTAGTATGCGAGACGTGACTTGGTTCCCTTTTTTGTCCTTCATATATAGGAGACATGAGTTGGTTCTATTCTTTCTTTTGGGTCCATTATTTCATTGCTCAGTAATTTTATTTTAAAGTACCTAGTAGATTTCCAAGACTAGAGATTCTCTAAATTTCAATTATCACACTTGTTCCTACACCAAAATGTAAATTTTAACCAAACTAAAAAAGCATATTGGCAGACACTGGACCAAAGGTAAGTACCAATAACCAGTTAATCTTAATTCTAACTAGTTGGTATTGCCTATATGGATCTTTGCTTCCATTGTATGTGCTCTTTGACAAAACCACATAGATTTGAGGAGATTGAAGGTATTTTGAGACAACTTTGTTCCATGTGGGATAGCTCGATCTCTGTAATGCCTTGAATCATGATAGTGTTATGCGAACAATCAGCACAATTTTAAGTACATACAACATGATTTGACCATTATGCGTTTTTCTCTCGTTGTCTCCTCGATATGTGCTACTTGCATCTTTGTCAGATATGATTATTTCTAATATCATTTATCCATCCATCTTAATTTCTATTAAATACTTATGTGTTCATATTTCTGCTGTAGTGCCTTTTAAACTGTATTTTAATAAAATAATTGTTTCTTTGATAAGTTGAAGGAAAGTCTATTTCTTAGAGGCAGTGATGATATTGTTAAAAAAAGAAAAAAGAGTCTAATTCTTAAGCTTAGATGTGAAAATATGAATTTGTATATATCTTCTTTATTGATTATGCCCTTCATTTACTCCACTGTGCCTTTTCCCCCCCTAAAGTCGTTCTACTAATTTCTTTTCTGAACTTACTTTGTGCCTTCTGTTGCAGCTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCGGTAAGCAGTTGTTTGTATAATGGATTTCCTATGTCTAGATTGATTGTTGCGCTTCTGAATAAATACTTCCCATGTTTTTTCTAGGGAATAGCTTACGAATCTAAAGAAATACTTACATATAAATGTGCATACACACACAGATATCTGTGTATTCATGTGCTATTGTCATGTTTCTTACATGTGTGTATTATTTTATTTGACGGTTGCACCTGTTGACTGGGACTTCATCTTGTGCATCTATCTACTTTAATAGGCCAATATTTTCTTTCACAGTCTGGCATCTGGCACGCAGGGGCTTGCTATGGATATAACCTAGCAAGATAATTTATTAACGTTCTAATGTCAGTACTTGAGGACTGTTTCACAACTAGCAGGGATGCATTATTATAACAGGTTAACGGTTATGGGCTTATAGCTGGACCTGCAATTGGAATGCCGCTTGCTCAAGAAAAGTTGAATATGCTGTTGAACGAAATGAATGAATAAAGTACAAAAGGTTGAAATCAACAGCAAAGCTCGATATGATTCTCTCAATAGATTGTGCGGTCTGTGAATTAAGCTCTTAGTTGAGGTGATAAGATCCTAACTAGAGTAGATATACTTCATCTTACATGAGATGCATTTTATTTGTATGATACATCAAAGTTTCTGCAAAGAGCAAAACTCTGAACTGCATAATATGTTCATCAGATATATTAGCCAATTCTTATGTTCATATGTAGATAAGGGAAAATGTCTGAGCTAACAAGAGCAAAGATCTGGCCTAAGTGTGTCATATTAGTTGTTTCTTGATTTCTTCTAGTGACACCTGATGATTGGGAGAGACCTTGTTAAACATTGACCACGGTTAACCATTCTTCAACTTTTTACAATTAGTTTCAAAATTTGAGGCATGTTTGAACAGCCATGTACATTGTCTTATATGTTCTCTTCAATTGCCACTAGAAACATTTGATATTGCTTGTCATTTTTTTGTATGTCAATGCAAGTAATGGCCTTGAAATTTCTAAATTATGTCCTCGCTAGGTTTTTCATTGCTGCGTAGTCTTTACTAACATTAACCTTTTCTCAGATGTACCTTGTTAAACGGCTTTACTTAGCTCTCAGATATCATCCACAATTGCCTCTACTTAATGGAGCATCACATCATGTACATGCTTTGATTGTTTGACTGGCATAAAATGTTGTGTCGCTACTCCTCTATGAGCATCAGCTGTAAATTTTGCTAACTAGAGAAACAATGTTGAGTATACATTCTAATTCTCTTGGACAGTCTTTGAGGCATGGTTTTATTATCTGCTTCTCTACCTTTATATGACTAGTATGAGACCACAGGGAAAGTACAATCTAAGAACTGAATGCCCTTGCTTGGGTTTTAGCTTTAATGGCCATACAATTGTGGATACTTTAGTTACAAAAGGCTCATGTGATGTATTTCAACGTATTGTGTTTGTGATTTTAACAGTCACAACTTTAGGGTTTTCTTGGACTGTTGTGGCTGTTATATGTTCCTCTGTTTTAATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTAATTAGAAGCTTAACTTCTTTATTTGGTATAATCTTTTCATTAGAAGCTTAACTTCTTTATTTGGTAGAATCTTTTGATTAGAAGCATCTTTCTATTGGTTCTTAATCAATATTTTGTTTGTGGATTGTTTTATGTGATGTTATGTTTATTGTATTATTGATTGCTTCACCAATGTTTATGGGATTTGACCAATTTCTAAATTTGTGGAAGCTGCCAATAATGGCAGGGGATCAATTTATCATATGTCAGAAAGATGAACTATTAGAGGATGTAGTCAACTTACTGCCTAATGTAGGATTGCAAATCTTGTAACCTACATCAAAAAGTGTAGCTCCCTTCAAAAACTTACAACATGTGCCATCTATCAGTTGCTCCTATAAGTAGTCTAAAACATCAAAAATCTCTTCTGTTTGAGCTATTAGATTCTGTTTACACCAACAATAAAAAAAGCGAGGCAGATCATCTTAAAGCCCTGTAAGTTGCTCTGCTTGTCTTCAAAACATCTCCTTTTCCTTTCCTCCCAGACTGTCCACCAAATGCAAGCAGAGACAATTTTCTATCTCTTTTCAAAACCATTTTGAGTCCTGTTGTTCAAAACTGAGAATATCACTGTGCTGATATAATGATTGGCTAAGCTGCTCGGACTCTTCACTTTTGGTGCCTCACCCATGTCGACACGACATGGGTGTGGGATCCTTGTCCGATTTGGTAAACGGATTTTTGGTACTTTGACCAAAATCGTTGGGGAAAGTCTGGACAATTTTAATTATTCCTATAATCAATACAAAAGCTAAGGTGAAATTGAAGGAAATGGAATACCTTTTATATGGAAGTTTCTATTTCACTCCTTTTCCTTTAATCTCCTTCCGGGATTCTCCTCAAGTTCTCTACATAATATGTCATAATCTGGTCTTTATAACTTTATTTTTAGATATTTTAATTATTTTAGGCGACTCCCTGCACCGTATCATACATGGATCCTATCCGGGAATCTTAAAAATTAGATCATGAAGGATCCGACCTCTAGATCCACACTTGTACACCCGCACCCGAGTCTGAGCAACTTAGATGTTTAGTCCACACAATCCATCTTGTGCCAAACCCCATTCTTTGAAGCATATGGATGAAGGAGCTCCAGTTCAAGTGATATATGTTTAGTGGATATGTAGTTTGAATAAGATACCTGGATTTAGGCTTCTTCGTCTGTTTCCCCTGCACTCAGTGGCAATTAAGATTGCATCCATGATCTTCCTCCCAATGTAAGGATCTTACATTTTTGTTTAACCCTACTCCTTTTGTTCAAAAAGGTAATATGGAAGGAAGTAAGGAACATGAGTATCCTCTTCCCCCAAGGGTAGGGAGAAACTGTTGGTAACATTAATGCTGATATCCCTTAGTTGTGTATCCTAAGGAGAGGATCCTCATGCTCTCCTGATGATTGTTTTTTGGTTGATGCACAATGTTTGAATCGATTATCTGAAGGGCAAAAATTGAACACTGATGAAGATCAATGTAATAATTTACTGAAACTTCAGGAGGCTGTAAAGTAGAGGTACGGCCAGTTATCTTTTGGCAATGCTTTATGCAAAGTCAGGACATTGATGTCTTCAGTATTCACTAGTGAAAAAAGGTTTCCTGTACTAGGGTCTAGGGCTGCTTGCAGGAGTGTCTCCACCAGTATAGAGGATCATCTTTGTTTCCCTTGTTCTTGGGACCAAAAGTTTCCAACACAAGCATTCCCCTGCCTTTCTTTCCCGGCTATGTCTGCTTCTTGCTCCCTACGGTGTAGTAAAAGTCTGTTTCATGTGGTGTCATGGACCTGTATTCTCAGTCTCTTCTACTTTTTGATACTAAGACGTGGACCCTTGCTCCCTGAATTTGGCTGGTCTGGTCATATCTTTTGTTGCCATCAGAATAACTCATATGATTACTAAGTTCTGGTAACAAATTAGAATCCATGGGCAAACGCTGAAGCTTATGGTCTTATGTTTGAAGGCTAAATTATTTATATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATCTGACTTTGGTGGGTTCACCTTACTCTCTGTTGTATAACTTTTTGTTTTATGCCAAGCAAAACTTTTACTATAATTGAAACTCTGCAGTCCTTGGTTCCTATATTTGGAATTTTATTTCCCCTATAATTGGATCTAGAGATGAAACAGATCTGATATGTGTACAGGTCCAAGCAGTGAATTATCAACAGTGTAAGTACTGCTCCCTGATAGTGGCTAAGCTGCTTTGTGCACTGAAATTAATAATTTTTTTTCCTCCTTTAACTAGATATAGACGGCATTTTCTCTGATCCTGTCATATGTGTTATTTGGTTATTTAGGAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGA</genome_strand>
        <mrna_strand>CTTGCTGACATCTTTCATGGTCGGCATTGTCAAACCCCCATTTTCCCTTTTCCTTTTCCCCACCCACCTCTTTCATTTTCCTCTTTTCCTTTCCTCAATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAG................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGTAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGC-..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E325909" ref_strand="+" ref_description="SGN-E325909 [cTOC-12-C10]">
      <seq>ttttctttcttttagaattctagtaagttcttttctaacaagaattttagtaagttcttttataacacgttatcagcacgaaattgctacttgcaaaggtactatataaatatttttatttaattcacatattctctcataattttcattatgtcgaatttatccaaacttgagtttgtggcattagatatttctggaaagaattatctttcatgggtactcgatgctgagattcacttggctgctaaaggtcttgatgccactattactcagggaaatgaagcatcgagtcaagataaggcgaaggctatgattttccttcgtcatcatcttgatgagggcctgaagattgaatatctgacagtgaaagatccacttgaattgtggactgatttaaaggggagatatgaccacctaaaggcaacagtgttgccaagagctcgttatgagtggatgcatttacggtttcaagattttaagaccgtaattgaatacaactctgctgtattcaggataacctcccagttgaaattatgtggggagactataaaagatgaggacatgttggaaaagacacttactacttttcatgcctcgaatgtgatattgcagcagcaatatcgtgaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="+" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="88881" stop="90086"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="89213" g_stop="89788" g_length="576"/>
          <reference_exon_boundary r_type="cDNA" r_start="54" r_stop="629" r_length="576" r_score="0.901"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="+" ref_id="SGN-E325909" ref_strand="+">
        <total_alignment_score>0.901</total_alignment_score>
        <cumulative_length_of_scored_exons>576</cumulative_length_of_scored_exons>
        <coverage percentage="0.916" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E325909" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="89213" e_stop="89788"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTTTTTTTGTAATACGTTATCTGCACGAAGTTTTTACTTGCAAAGGTATTATATAAATAATCTTATTTAATTCATATATTCTCTCATAA-TCTCATTATGTCGAATTTATCCAAATTTGAGTTTGTGGCATTACATATTTCTGGAAAGAATTATCTTTCATGGCTACTCGATGCTGAGATTCAATTAGCTGCTAAAGGTCTTGATGCCACCATTACTCAGGGAAATAAAGCAACGAGCCAAGATAAGGCGAAGACTATAATTTTCCTTGTTCATCATCTTTGATGAGGTCCTAAAGATTGAATATCTAACAGTAAAAGATCCACTTGAATTGTGGACTGATTTAAAGGGAAGATATGACCACCTAAAGGCAACAGTGTTTCCAAGAGCTCGTTATGAGTGGATGCACTTACTGTCTCAATATTTTAAGATTGTAATTGAGTACAACTCTGTTGTATTTAAGATAACCTCCTAATTGATATTATGTGGAAAGACTATAAAAGATGAGGACATGTTGGAAAAGACACTTAGTACTTTCCATGCCTCAAATGTGATATTGCAGAAGCAATATCGTCAATT</genome_strand>
        <mrna_strand>GTTCTTTTATAACACGTTATCAGCACGAAATTGCTACTTGCAAAGGTACTATATAAATATTTTTATTTAATTCACATATTCTCTCATAATTTTCATTATGTCGAATTTATCCAAACTTGAGTTTGTGGCATTAGATATTTCTGGAAAGAATTATCTTTCATGGGTACTCGATGCTGAGATTCACTTGGCTGCTAAAGGTCTTGATGCCACTATTACTCAGGGAAATGAAGCATCGAGTCAAGATAAGGCGAAGGCTATGATTTTCCTTCGTCATCATC-TTGATGAGGGCCTGAAGATTGAATATCTGACAGTGAAAGATCCACTTGAATTGTGGACTGATTTAAAGGGGAGATATGACCACCTAAAGGCAACAGTGTTGCCAAGAGCTCGTTATGAGTGGATGCATTTACGGTTTCAAGATTTTAAGACCGTAATTGAATACAACTCTGCTGTATTCAGGATAACCTCCCAGTTGAAATTATGTGGGGAGACTATAAAAGATGAGGACATGTTGGAAAAGACACTTACTACTTTTCATGCCTCGAATGTGATATTGCAGCAGCAATATCGTGAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E744421" ref_strand="+" ref_description="SGN-E744421 [GI|399650]">
      <seq>aattctgctttgcttcttgcccaattcctcaagataatctgccatccatatcatctctttcccagcttcagctattgccacaaactcagctttagtggatgaaagagaaacatacttctaaagacacggacatccaacttactgcttttccacctatggtgtaaatgtacccggacgtactcttgctcgagtcaacatccccaccaagatcagcatcc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="+" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="90492" stop="91307"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="90790" g_stop="91007" g_length="218"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="218" r_length="218" r_score="0.913"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="+" ref_id="SGN-E744421" ref_strand="+">
        <total_alignment_score>0.913</total_alignment_score>
        <cumulative_length_of_scored_exons>218</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E744421" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="90790" e_stop="91007"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTCTCGCTTTGCTTCTTGCCCAATTCTTCAAGATAATCTGCCAGCCATATCATCTCTTTCCCAGCTTCAGCTATTGCCACACACTCAGCTTCAGTAGATGAAAGAGAAACACACTTCTGAAG-CCTGGACATCCAACTCACTGCGGTTCCACCTATGGTGTAAATGTACCCGGATGTACTCTTGATCGAGTCAACATCCCCACCAAGATCAGCATCC</genome_strand>
        <mrna_strand>AATTCT-GCTTTGCTTCTTGCCCAATTCCTCAAGATAATCTGCCATCCATATCATCTCTTTCCCAGCTTCAGCTATTGCCACAAACTCAGCTTTAGTGGATGAAAGAGAAACATACTTCTAAAGACACGGACATCCAACTTACTGCTTTTCCACCTATGGTGTAAATGTACCCGGACGTACTCTTGCTCGAGTCAACATCCCCACCAAGATCAGCATCC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E375424" ref_strand="+" ref_description="SGN-E375424 [TUS-15-P18]">
      <seq>cctttacaaaataatatctaggattccattaatatttgaatgttaaaatcaaatcataataatttagtaggctgattaggtgttataacttttagcattgccttgtcatgtataaaccatgcttaaagattaatttgttcatatcatttacatttacaaaatcatgcatatatgtgttagtcctttcttgaacacctagaaatcatgtctatatgcttgtaaataacttttaacatatccttaaaaactaaaaattgattgtgcatatttgtgccctccccttaaaattagttaatattatttaattattaattctatttgacttcttgaagatttccgcatttatgatgcaatat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0121C14-5giqL/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0121C14.1" temp_strand="-" temp_description="C04SLm0121C14.1  CU457804.4 htgs_phase:3 submitted_to_sgn_as:C04SLm0121C14 sequenced_by:sanger upload_account_name:uk">
        <position start="118556" stop="117630"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="118257" g_stop="117936" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="320" r_length="320" r_score="0.916"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0121C14.1" gen_strand="-" ref_id="SGN-E375424" ref_strand="+">
        <total_alignment_score>0.916</total_alignment_score>
        <cumulative_length_of_scored_exons>322</cumulative_length_of_scored_exons>
        <coverage percentage="0.904" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0121C14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E375424" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="118257" e_stop="117936"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCTTTAAAAAATAATAACTA-GATTCCATTAATTTTTGAATGTTAAAATCAAATCATAATAATTTAGTAGGTTGATTAGGTGTTATAACTTTTAGCATTGTCTTGTCATGTAGAAACCATGCCTAAAGATTAATTTGTTCATATCATTTAGATTTACAAAATCATGCATATATGTGTTACTCTTTTTTTTTTGAACACCTAGAAATCATGTCTATAGGCTTGTAAATAACTTTTAACATATCCATAAAAAATAAAATTTGTTTGTGCATATTTGAGCCCTCTCCCTAAAATTAGTTAATATTATTTAATTAGTAATCCTATTT</genome_strand>
        <mrna_strand>CCTTTACAAAATAATATCTAGGATTCCATTAATATTTGAATGTTAAAATCAAATCATAATAATTTAGTAGGCTGATTAGGTGTTATAACTTTTAGCATTGCCTTGTCATGTATAAACCATGCTTAAAGATTAATTTGTTCATATCATTTACATTTACAAAATCATGCATATATGTGTTAGTC---CTTTCTTGAACACCTAGAAATCATGTCTATATGCTTGTAAATAACTTTTAACATATCCTTAAAAACTAAAAATTGATTGTGCATATTTGTGCCCTCCCCTTAAAATTAGTTAATATTATTTAATTATTAATTCTATTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>8</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="65874" PGL_stop="57667"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="65874" e_stop="65460"/>
            <exon e_start="63283" e_stop="63143"/>
            <exon e_start="59148" e_stop="58876"/>
            <exon e_start="58158" e_stop="57667"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.994" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="0.968" acc_prob="0.998" e_score="1.000"/>
          <exon-intron don_prob="1.000" acc_prob="0.999" e_score="1.000"/>
          <exon-only e_score="0.991"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="65874" e_stop="65460" e_length="415"/>
          </exon>
          <intron i_serial="1" don_prob="0.994" acc_prob="0.998">
            <gDNA_intron_boundary i_start="65459" i_stop="63284" i_length="2176"/>
          </intron>
          <exon e_serial="2" e_score="1.000">
            <gDNA_exon_boundary e_start="63283" e_stop="63143" e_length="141"/>
          </exon>
          <intron i_serial="2" don_prob="0.968" acc_prob="0.998">
            <gDNA_intron_boundary i_start="63142" i_stop="59149" i_length="3994"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="59148" e_stop="58876" e_length="273"/>
          </exon>
          <intron i_serial="3" don_prob="1.000" acc_prob="0.999">
            <gDNA_intron_boundary i_start="58875" i_stop="58159" i_length="717"/>
          </intron>
          <exon e_serial="4" e_score="0.991">
            <gDNA_exon_boundary e_start="58158" e_stop="57667" e_length="492"/>
          </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="65874" stop="65460"/>
              <exon start="63283" stop="63143"/>
              <exon start="59148" stop="59103"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E292011" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65845" stop="65460"/>
              <exon start="63283" stop="63143"/>
              <exon start="59148" stop="58976"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E343462" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65778" stop="65460"/>
              <exon start="63283" stop="63143"/>
              <exon start="59148" stop="58876"/>
              <exon start="58158" stop="57961"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E707627" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="65737" stop="65460"/>
              <exon start="63283" stop="63143"/>
              <exon start="59148" stop="58970"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E320543" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="58001" stop="57667"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E218533" 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>CTTGCTGACATCTTTCATGGTCGGCATTGTCAAACCCCCATTTTCCCTTTTCCTTTTCCCCACCCTCCTCTTTCATTTTCCTCTTTTCCTTTCCTCAATCACTCTTACTTCAATTCAATTCAATCATTAATCTCACAAAAGGGTAAAGATCCATTGATTAACTATGGTGGTTTGGACCCGTGCAGTGGTAAGAACATGGAGATGTAGACCCACCAATTTTAGCCGGGCTTTTTCTGAAAAATTACCTACATCGGAGCCTAAGGGCAGAAATATTCAGTGGGTATTCCTGGGTTGCCCTGGTGTCGGAAAAGGGACTTATGCAGCTCGACTTTCTAAGCTTCTTGGCGTACCCCACATAGCTACTGGTGATCTCGTCCGTCAACAATTATCCTCTCATGGTCCTCTTGCCTCAAAG : CTTGTGGATATTGTTAGCCAAGGGCAATTAATTTCAGACGAAATTGTAATAGATTTGCTATCTAAGCGTCTTGAAGCTGGAGAAGCAAAGGGTGAAACAGGATTTATTCTTGATGGATTTCCTCGAACTATACGGCAGGCG : GAAATCTTAGAGGGAGTGACAGACATTGACTTGGTGATTAATCTGAAGCTTCGGGAAGATGCGTTGATTGCCAAGTGCTTAGGAAGAAGGACTTGTAGTGAGTGTGGAGGCAATTATAATGTTGCGTGCATTGATATGAAGGGTGATGATGGAGAAACTAGAATGTACATGCCTCCCCTTCTCCCTCCTCCGCATTGTGAAACCAAACTTATTACACGGTCTGATGACACTGAAAATGTTGTGAAGGAACGCCTCCGCATCTACCATGAAATG : AGCAAACCAGTAGAGGACTTTTACCGCCAGCGAGGTAAGCTGTTGGAGTTTGATCTCCCTGGAGGAATTCCAGAGTCATGGTCAAAGTTACTTCAGGCTTTGAATATCTACGACGACGAGGATAAGAAATCTGCTGCAGCATGATAATTGATCACTTGTCTTGTCAGTATGTTTACTATTGTTGTAGGTTCATTCTTTGCATACATGTTGGACATGCACAAGCGTCTATAATGGGGCTCCCTACCTCCTACTCTTCTCTCCCTCACTATTGTATCATATAATGCTAAGGCAACTATAACGATTGTACGGAGTATTTCTTGTCCATATTTGTTCATAAAGCTTAGCAAACCATGTGATTTCATTAAATATTTTGATGATATAGTAGGGGAAATGTTATTTAGATCTTATTACATAGTCTGGTAAGTTCATATGCTCAAATAATGAGTTAGCTCTTATTACATGGTTTGGTATGTTCATATGCTCAAATAATCA</gDNA_template>
            <first_frame> L  A  D  I  F  H  G  R  H  C  Q  T  P  I  F  P  F  P  F  P  H  P  P  L  S  F  S  S  F  P  F  L  N  H  S  Y  F  N  S  I  Q  S  L  I  S  Q  K  G  K  D  P  L  I  N  Y  G  G  L  D  P  C  S  G  K  N  M  E  M  *  T  H  Q  F  *  P  G  F  F  *  K  I  T  Y  I  G  A  *  G  Q  K  Y  S  V  G  I  P  G  L  P  W  C  R  K  R  D  L  C  S  S  T  F  *  A  S  W  R  T  P  H  S  Y  W  *  S  R  P  S  T  I  I  L  S  W  S  S  C  L  K   : A  C  G  Y  C  *  P  R  A  I  N  F  R  R  N  C  N  R  F  A  I  *  A  S  *  S  W  R  S  K  G  *  N  R  I  Y  S  *  W  I  S  S  N  Y  T  A  G   : G  N  L  R  G  S  D  R  H  *  L  G  D  *  S  E  A  S  G  R  C  V  D  C  Q  V  L  R  K  K  D  L  *  *  V  W  R  Q  L  *  C  C  V  H  *  Y  E  G  *  *  W  R  N  *  N  V  H  A  S  P  S  P  S  S  A  L  *  N  Q  T  Y  Y  T  V  *  *  H  *  K  C  C  E  G  T  P  P  H  L  P  *  N   : E  Q  T  S  R  G  L  L  P  P  A  R  *  A  V  G  V  *  S  P  W  R  N  S  R  V  M  V  K  V  T  S  G  F  E  Y  L  R  R  R  G  *  E  I  C  C  S  M  I  I  D  H  L  S  C  Q  Y  V  Y  Y  C  C  R  F  I  L  C  I  H  V  G  H  A  Q  A  S  I  M  G  L  P  T  S  Y  S  S  L  P  H  Y  C  I  I  *  C  *  G  N  Y  N  D  C  T  E  Y  F  L  S  I  F  V  H  K  A  *  Q  T  M  *  F  H  *  I  F  *  *  Y  S  R  G  N  V  I  *  I  L  L  H  S  L  V  S  S  Y  A  Q  I  M  S  *  L  L  L  H  G  L  V  C  S  Y  A  Q  I  I  </first_frame>
            <second_frame>  L  L  T  S  F  M  V  G  I  V  K  P  P  F  S  L  F  L  F  P  T  L  L  F  H  F  P  L  F  L  S  S  I  T  L  T  S  I  Q  F  N  H  *  S  H  K  R  V  K  I  H  *  L  T  M  V  V  W  T  R  A  V  V  R  T  W  R  C  R  P  T  N  F  S  R  A  F  S  E  K  L  P  T  S  E  P  K  G  R  N  I  Q  W  V  F  L  G  C  P  G  V  G  K  G  T  Y  A  A  R  L  S  K  L  L  G  V  P  H  I  A  T  G  D  L  V  R  Q  Q  L  S  S  H  G  P  L  A  S  K  :  L  V  D  I  V  S  Q  G  Q  L  I  S  D  E  I  V  I  D  L  L  S  K  R  L  E  A  G  E  A  K  G  E  T  G  F  I  L  D  G  F  P  R  T  I  R  Q  A  :  E  I  L  E  G  V  T  D  I  D  L  V  I  N  L  K  L  R  E  D  A  L  I  A  K  C  L  G  R  R  T  C  S  E  C  G  G  N  Y  N  V  A  C  I  D  M  K  G  D  D  G  E  T  R  M  Y  M  P  P  L  L  P  P  P  H  C  E  T  K  L  I  T  R  S  D  D  T  E  N  V  V  K  E  R  L  R  I  Y  H  E  M  :  S  K  P  V  E  D  F  Y  R  Q  R  G  K  L  L  E  F  D  L  P  G  G  I  P  E  S  W  S  K  L  L  Q  A  L  N  I  Y  D  D  E  D  K  K  S  A  A  A  *  *  L  I  T  C  L  V  S  M  F  T  I  V  V  G  S  F  F  A  Y  M  L  D  M  H  K  R  L  *  W  G  S  L  P  P  T  L  L  S  L  T  I  V  S  Y  N  A  K  A  T  I  T  I  V  R  S  I  S  C  P  Y  L  F  I  K  L  S  K  P  C  D  F  I  K  Y  F  D  D  I  V  G  E  M  L  F  R  S  Y  Y  I  V  W  *  V  H  M  L  K  *  *  V  S  S  Y  Y  M  V  W  Y  V  H  M  L  K  *  S </second_frame>
            <third_frame>   C  *  H  L  S  W  S  A  L  S  N  P  H  F  P  F  S  F  S  P  P  S  S  F  I  F  L  F  S  F  P  Q  S  L  L  L  Q  F  N  S  I  I  N  L  T  K  G  *  R  S  I  D  *  L  W  W  F  G  P  V  Q  W  *  E  H  G  D  V  D  P  P  I  L  A  G  L  F  L  K  N  Y  L  H  R  S  L  R  A  E  I  F  S  G  Y  S  W  V  A  L  V  S  E  K  G  L  M  Q  L  D  F  L  S  F  L  A  Y  P  T  *  L  L  V  I  S  S  V  N  N  Y  P  L  M  V  L  L  P  Q  S :   L  W  I  L  L  A  K  G  N  *  F  Q  T  K  L  *  *  I  C  Y  L  S  V  L  K  L  E  K  Q  R  V  K  Q  D  L  F  L  M  D  F  L  E  L  Y  G  R  R :   K  S  *  R  E  *  Q  T  L  T  W  *  L  I  *  S  F  G  K  M  R  *  L  P  S  A  *  E  E  G  L  V  V  S  V  E  A  I  I  M  L  R  A  L  I  *  R  V  M  M  E  K  L  E  C  T  C  L  P  F  S  L  L  R  I  V  K  P  N  L  L  H  G  L  M  T  L  K  M  L  *  R  N  A  S  A  S  T  M  K  * :   A  N  Q  *  R  T  F  T  A  S  E  V  S  C  W  S  L  I  S  L  E  E  F  Q  S  H  G  Q  S  Y  F  R  L  *  I  S  T  T  T  R  I  R  N  L  L  Q  H  D  N  *  S  L  V  L  S  V  C  L  L  L  L  *  V  H  S  L  H  T  C  W  T  C  T  S  V  Y  N  G  A  P  Y  L  L  L  F  S  P  S  L  L  Y  H  I  M  L  R  Q  L  *  R  L  Y  G  V  F  L  V  H  I  C  S  *  S  L  A  N  H  V  I  S  L  N  I  L  M  I  *  *  G  K  C  Y  L  D  L  I  T  *  S  G  K  F  I  C  S  N  N  E  L  A  L  I  T  W  F  G  M  F  I  C  S  N  N   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0121C14.1" strand="-"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="65717" stop="65460"/>
                    <exon start="63283" stop="63143"/>
                    <exon start="59148" stop="58876"/>
                    <exon start="58158" stop="58015"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>813</number_coding_nucleotides>
                  <number_encoded_amino_acids>271</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>LTMVVWTRAVVRTWRCRPTNFSRAFSEKLPTSEPKGRNIQWVFLGCPGVGKGTYAARLSKLLGVPHIATGDLVRQQLSSHGPLASKLVDIVSQGQLISDEIVIDLLSKRLEAGEAKGETGFILDGFPRTIRQAEILEGVTDIDLVINLKLREDALIAKCLGRRTCSECGGNYNVACIDMKGDDGETRMYMPPLLPPPHCETKLITRSDDTENVVKERLRIYHEMSKPVEDFYRQRGKLLEFDLPGGIPESWSKLLQALNIYDDEDKKSAAA*</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="89213" PGL_stop="89788"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="89213" e_stop="89788"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.901"/>
        </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="0.901">
            <gDNA_exon_boundary e_start="89213" e_stop="89788" e_length="576"/>
          </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="89213" stop="89788"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E325909" 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>CTTTTTTTGTAATACGTTATCTGCACGAAGTTTTTACTTGCAAAGGTATTATATAAATAATCTTATTTAATTCATATATTCTCTCATAATCTCATTATGTCGAATTTATCCAAATTTGAGTTTGTGGCATTACATATTTCTGGAAAGAATTATCTTTCATGGCTACTCGATGCTGAGATTCAATTAGCTGCTAAAGGTCTTGATGCCACCATTACTCAGGGAAATAAAGCAACGAGCCAAGATAAGGCGAAGACTATAATTTTCCTTGTTCATCATCTTTGATGAGGTCCTAAAGATTGAATATCTAACAGTAAAAGATCCACTTGAATTGTGGACTGATTTAAAGGGAAGATATGACCACCTAAAGGCAACAGTGTTTCCAAGAGCTCGTTATGAGTGGATGCACTTACTGTCTCAATATTTTAAGATTGTAATTGAGTACAACTCTGTTGTATTTAAGATAACCTCCTAATTGATATTATGTGGAAAGACTATAAAAGATGAGGACATGTTGGAAAAGACACTTAGTACTTTCCATGCCTCAAATGTGATATTGCAGAAGCAATATCGTCAATT</gDNA_template>
            <first_frame> L  F  L  *  Y  V  I  C  T  K  F  L  L  A  K  V  L  Y  K  *  S  Y  L  I  H  I  F  S  H  N  L  I  M  S  N  L  S  K  F  E  F  V  A  L  H  I  S  G  K  N  Y  L  S  W  L  L  D  A  E  I  Q  L  A  A  K  G  L  D  A  T  I  T  Q  G  N  K  A  T  S  Q  D  K  A  K  T  I  I  F  L  V  H  H  L  *  *  G  P  K  D  *  I  S  N  S  K  R  S  T  *  I  V  D  *  F  K  G  K  I  *  P  P  K  G  N  S  V  S  K  S  S  L  *  V  D  A  L  T  V  S  I  F  *  D  C  N  *  V  Q  L  C  C  I  *  D  N  L  L  I  D  I  M  W  K  D  Y  K  R  *  G  H  V  G  K  D  T  *  Y  F  P  C  L  K  C  D  I  A  E  A  I  S  S  I </first_frame>
            <second_frame>  F  F  C  N  T  L  S  A  R  S  F  Y  L  Q  R  Y  Y  I  N  N  L  I  *  F  I  Y  S  L  I  I  S  L  C  R  I  Y  P  N  L  S  L  W  H  Y  I  F  L  E  R  I  I  F  H  G  Y  S  M  L  R  F  N  *  L  L  K  V  L  M  P  P  L  L  R  E  I  K  Q  R  A  K  I  R  R  R  L  *  F  S  L  F  I  I  F  D  E  V  L  K  I  E  Y  L  T  V  K  D  P  L  E  L  W  T  D  L  K  G  R  Y  D  H  L  K  A  T  V  F  P  R  A  R  Y  E  W  M  H  L  L  S  Q  Y  F  K  I  V  I  E  Y  N  S  V  V  F  K  I  T  S  *  L  I  L  C  G  K  T  I  K  D  E  D  M  L  E  K  T  L  S  T  F  H  A  S  N  V  I  L  Q  K  Q  Y  R  Q   </second_frame>
            <third_frame>   F  F  V  I  R  Y  L  H  E  V  F  T  C  K  G  I  I  *  I  I  L  F  N  S  Y  I  L  S  *  S  H  Y  V  E  F  I  Q  I  *  V  C  G  I  T  Y  F  W  K  E  L  S  F  M  A  T  R  C  *  D  S  I  S  C  *  R  S  *  C  H  H  Y  S  G  K  *  S  N  E  P  R  *  G  E  D  Y  N  F  P  C  S  S  S  L  M  R  S  *  R  L  N  I  *  Q  *  K  I  H  L  N  C  G  L  I  *  R  E  D  M  T  T  *  R  Q  Q  C  F  Q  E  L  V  M  S  G  C  T  Y  C  L  N  I  L  R  L  *  L  S  T  T  L  L  Y  L  R  *  P  P  N  *  Y  Y  V  E  R  L  *  K  M  R  T  C  W  K  R  H  L  V  L  S  M  P  Q  M  *  Y  C  R  S  N  I  V  N  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0121C14.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="89273" stop="89494"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>219</number_coding_nucleotides>
                  <number_encoded_amino_acids>73</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>SYLIHIFSHNLIMSNLSKFEFVALHISGKNYLSWLLDAEIQLAAKGLDATITQGNKATSQDKAKTIIFLVHHL*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0121C14.1" strand="+"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="89472" stop="89684"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>210</number_coding_nucleotides>
                  <number_encoded_amino_acids>70</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FSLFIIFDEVLKIEYLTVKDPLELWTDLKGRYDHLKATVFPRARYEWMHLLSQYFKIVIEYNSVVFKITS*</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="90790" PGL_stop="91007"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="90790" e_stop="91007"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.913"/>
        </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="0.913">
            <gDNA_exon_boundary e_start="90790" e_stop="91007" e_length="218"/>
          </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="90790" stop="91007"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E744421" 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>TCTTCTCGCTTTGCTTCTTGCCCAATTCTTCAAGATAATCTGCCAGCCATATCATCTCTTTCCCAGCTTCAGCTATTGCCACACACTCAGCTTCAGTAGATGAAAGAGAAACACACTTCTGAAGCCTGGACATCCAACTCACTGCGGTTCCACCTATGGTGTAAATGTACCCGGATGTACTCTTGATCGAGTCAACATCCCCACCAAGATCAGCATCC</gDNA_template>
            <first_frame> S  S  R  F  A  S  C  P  I  L  Q  D  N  L  P  A  I  S  S  L  S  Q  L  Q  L  L  P  H  T  Q  L  Q  *  M  K  E  K  H  T  S  E  A  W  T  S  N  S  L  R  F  H  L  W  C  K  C  T  R  M  Y  S  *  S  S  Q  H  P  H  Q  D  Q  H   </first_frame>
            <second_frame>  L  L  A  L  L  L  A  Q  F  F  K  I  I  C  Q  P  Y  H  L  F  P  S  F  S  Y  C  H  T  L  S  F  S  R  *  K  R  N  T  L  L  K  P  G  H  P  T  H  C  G  S  T  Y  G  V  N  V  P  G  C  T  L  D  R  V  N  I  P  T  K  I  S  I  </second_frame>
            <third_frame>   F  S  L  C  F  L  P  N  S  S  R  *  S  A  S  H  I  I  S  F  P  A  S  A  I  A  T  H  S  A  S  V  D  E  R  E  T  H  F  *  S  L  D  I  Q  L  T  A  V  P  P  M  V  *  M  Y  P  D  V  L  L  I  E  S  T  S  P  P  R  S  A  S </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0121C14.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="118257" PGL_stop="117936"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="118257" e_stop="117936"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.916"/>
        </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="0.916">
            <gDNA_exon_boundary e_start="118257" e_stop="117936" e_length="322"/>
          </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="118257" stop="117936"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375424" 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>TCTTTAAAAAATAATAACTAGATTCCATTAATTTTTGAATGTTAAAATCAAATCATAATAATTTAGTAGGTTGATTAGGTGTTATAACTTTTAGCATTGTCTTGTCATGTAGAAACCATGCCTAAAGATTAATTTGTTCATATCATTTAGATTTACAAAATCATGCATATATGTGTTACTCTTTTTTTTTTGAACACCTAGAAATCATGTCTATAGGCTTGTAAATAACTTTTAACATATCCATAAAAAATAAAATTTGTTTGTGCATATTTGAGCCCTCTCCCTAAAATTAGTTAATATTATTTAATTAGTAATCCTATTT</gDNA_template>
            <first_frame> S  L  K  N  N  N  *  I  P  L  I  F  E  C  *  N  Q  I  I  I  I  *  *  V  D  *  V  L  *  L  L  A  L  S  C  H  V  E  T  M  P  K  D  *  F  V  H  I  I  *  I  Y  K  I  M  H  I  C  V  T  L  F  F  L  N  T  *  K  S  C  L  *  A  C  K  *  L  L  T  Y  P  *  K  I  K  F  V  C  A  Y  L  S  P  L  P  K  I  S  *  Y  Y  L  I  S  N  P  I  </first_frame>
            <second_frame>  L  *  K  I  I  T  R  F  H  *  F  L  N  V  K  I  K  S  *  *  F  S  R  L  I  R  C  Y  N  F  *  H  C  L  V  M  *  K  P  C  L  K  I  N  L  F  I  S  F  R  F  T  K  S  C  I  Y  V  L  L  F  F  F  *  T  P  R  N  H  V  Y  R  L  V  N  N  F  *  H  I  H  K  K  *  N  L  F  V  H  I  *  A  L  S  L  K  L  V  N  I  I  *  L  V  I  L  F </second_frame>
            <third_frame>   F  K  K  *  *  L  D  S  I  N  F  *  M  L  K  S  N  H  N  N  L  V  G  *  L  G  V  I  T  F  S  I  V  L  S  C  R  N  H  A  *  R  L  I  C  S  Y  H  L  D  L  Q  N  H  A  Y  M  C  Y  S  F  F  F  E  H  L  E  I  M  S  I  G  L  *  I  T  F  N  I  S  I  K  N  K  I  C  L  C  I  F  E  P  S  P  *  N  *  L  I  L  F  N  *  *  S  Y   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0121C14.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 90 chains have been computed
$ 
$ memory statistics:
$ 16256 bytes spliced alignments in total
$ 8 spliced alignments have been stored
$ 2032 bytes was the average size of a spliced alignment
$ 9152 bytes predicted gene locations in total
$ 4 predicted gene locations have been stored
$ 2288 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 106 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 23:44:35
-->
