<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-02-20 08:30:36"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/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-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E298638" ref_strand="+" ref_description="SGN-E298638 [cLET-44-A20]">
      <seq>tcattacatcggatttcagggtgagctaacgcttctagcttggactggatcttcttcttcatgtcttgatgccttgaagttccggcatggactagctgtttatgtattttagcttcttagatactcttagatttagtaatttgaagtacatgttcttgtgatgatgactgccagattttggggataataatagttgttgagtttttagaaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="38362" stop="37554"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="38062" g_stop="37845" g_length="218"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="219" r_length="219" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E298638" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>218</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E298638" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="38062" e_stop="37845"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCATTACACCTGATTTCAGGGTGAGCTAATGCTTCTAGCTTGGACTGGGTCTTCCTCTTCATGTCTTGATGCCTTGAACTTCCGGCATGGACTAGCATTTTCT-TATTTTAGCTTCTTAGATACTCTTAGATTTAGTAATTTGAGGCAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAGTTATTCAA</genome_strand>
        <mrna_strand>TCATTACATCGGATTTCAGGGTGAGCTAACGCTTCTAGCTTGGACTGGATCTTCTTCTTCATGTCTTGATGCCTTGAAGTTCCGGCATGGACTAGCTGTTTATGTATTTTAGCTTCTTAGATACTCTTAGATTTAGTAATTTGAAGTACATGTTCTTGTGATGATGACTGCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAAAAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E352716" ref_strand="+" ref_description="SGN-E352716 [cTOS-11-H19]">
      <seq>gatctgtcccaggcttggctaacgtcacagttttagcattacaatccaagattgcaaaatttggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaagtctacataagtattgctccccacaaaagtcaccagaccagacctatatactttttcaactatcacagactcacccaccggagtagaaacacgaataggcatgtcaagcaattcataatttaatttaagaccagtagcaaatgaggaagatacatatgaaaatgtggatccagggtcaaataatacaaaagccatgcaatcacaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="47023" stop="47953"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="47323" g_stop="47653" g_length="331"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="331" r_length="331" r_score="0.927"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E352716" ref_strand="+">
        <total_alignment_score>0.927</total_alignment_score>
        <cumulative_length_of_scored_exons>331</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E352716" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="47323" e_stop="47653"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATCTGCCCCAGGCTTGGCAAACGTCACAGTTTTAGCATTACAATCCAAGATCGCAAAATTCGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTATAAGATAACCAAGTCTACATAAGTATTGCTACCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTAACCCACCGGAGTAGAAACGTGAAGAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGAAAATGGGGAAGATACATAAGAAAATGTGGATCCAGGATCAAACAATACAGAAGCCATACAATCACAAATCAA</genome_strand>
        <mrna_strand>GATCTGTCCCAGGCTTGGCTAACGTCACAGTTTTAGCATTACAATCCAAGATTGCAAAATTTGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAGTCTACATAAGTATTGCTCCCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATGTCAAGCAATTCATAATTTAATTTAAGACCAGTAGCAAATGAGGAAGATACATATGAAAATGTGGATCCAGGGTCAAATAATACAAAAGCCATGCAATCACAAAAAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E329287" ref_strand="+" ref_description="SGN-E329287 [cTOD-2-K13]">
      <seq>acctagcccatctggtactaaggcggtgacacctccaccaactgaggaagtggtaagagagggtgaggatggggagaatgaacaagtgcagaatgaggaattgccaccccaacctacccaagagatgatcaatcaggttcttgcttaccttagcgggttatctgatcaaggccaagcacctccagtgttttctgcactagcacctcaggctccggaggtacaacatgcgcctactgtgactccccgcatcgatacctcattggaaataggaacgtttccccgtctgactacagggcctataatgacaaatgatcagcatgaactttttagtaagttcttgaaattgaaacctcaagtctacaagggtgttgaatctgaggatgcctacgattttctggttgactgtcatgagctactacacaagatgggtatagtagaacggtttggtgttgagtttgtgacttatcagtttcaagggaacgccaaaatgtggtggcggtcacatgttgagtgtcaaccaacagaggcaccacgtatgacttgggcatcattct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="49273" stop="48122"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="48973" g_stop="48422" g_length="552"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="554" r_length="554" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E329287" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>552</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E329287" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="48973" e_stop="48422"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ACCTAGCCCATATGGTACTAGGGCGGTGACTCCT-CACCGACTGAGAAAGTGGTAAGAGAGGGTGAGGAAGGGGAGAATGAACAAGTGTAGAATGAGGAATTGCCACCCCAACCTACCC-AGAGATGATCAATCAGGTTCTTGCTTATCTTAGCGGGTTATCTGATCAAGGCCAGAGACCTCCAGTGTTTTCTGCACTAGCACCTCAGGTTCTTGAGGTACAATATGTAGCTACTATGGCTCCCAGCATGGATGCCTCATTGGAAATAGGCACGTTTCCTCGTCTGACTACATGGCCTATAATGAAAAATGATCAGCATGAACTTTTCAGTAAGTTCTTAAAATTGAAACATCCAGTCATCAAGGGTGCTGAATCTAAGGATGCCTACGATTTTCTGGTTGACTGTCATGAGCTACTATACAAGATGGGTATAGTAGAACGGTTTGGTGTTGAGTTTGTGACTTATCAGTTTCAAGGGAACGCCAAAACGTGGTGGCAGTCACATGTTGAGTGTCAACCAATAGAGGCACCACCTATGACTTGGGCATCATTCT</genome_strand>
        <mrna_strand>ACCTAGCCCATCTGGTACTAAGGCGGTGACACCTCCACCAACTGAGGAAGTGGTAAGAGAGGGTGAGGATGGGGAGAATGAACAAGTGCAGAATGAGGAATTGCCACCCCAACCTACCCAAGAGATGATCAATCAGGTTCTTGCTTACCTTAGCGGGTTATCTGATCAAGGCCAAGCACCTCCAGTGTTTTCTGCACTAGCACCTCAGGCTCCGGAGGTACAACATGCGCCTACTGTGACTCCCCGCATCGATACCTCATTGGAAATAGGAACGTTTCCCCGTCTGACTACAGGGCCTATAATGACAAATGATCAGCATGAACTTTTTAGTAAGTTCTTGAAATTGAAACCTCAAGTCTACAAGGGTGTTGAATCTGAGGATGCCTACGATTTTCTGGTTGACTGTCATGAGCTACTACACAAGATGGGTATAGTAGAACGGTTTGGTGTTGAGTTTGTGACTTATCAGTTTCAAGGGAACGCCAAAATGTGGTGGCGGTCACATGTTGAGTGTCAACCAACAGAGGCACCACGTATGACTTGGGCATCATTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E209683" ref_strand="+" ref_description="SGN-E209683 [cLEC-54-L6]">
      <seq>taatgaactaaattcccaaatgagtatgatgaggaggtgtgagtcctcattgatgtgcttggtgttgtaaccaagggttatggtaactataaatgctgcatgttaaggatattagttgattttatgatattgcttaatacatactgttccctattttgagttggccgatgatatctactcagtacccgtggtttgtactgacccctacttttatgtttatcttcttgttatttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="51088" stop="50253"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="50788" g_stop="50553" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="236" r_length="236" r_score="0.928"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E209683" ref_strand="+">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>236</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E209683" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="50788" e_stop="50553"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATTAACCTAATTCCCAAATGAGTATGATGAGGAGGCGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAGTTGATTTTATGATATTGCTTAATATATATTGTTTTATATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGT-GTTTGTACTGACCCCCTACTTTTATGTTT-TCTTCTTTGTTATTTGTG</genome_strand>
        <mrna_strand>TAATGAACTAAATTCCCAAATGAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTATAAATGCTGCATGTTAAGGATATTAGTTGATTTTATGATATTGCTTAATACATACTGTTCCCTATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGTGGTTTGTACTGA-CCCCTACTTTTATGTTTATCTTC-TTGTTATTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E242359" ref_strand="+" ref_description="SGN-E242359 [cLEE-3-K21]">
      <seq>cctaatctactttgttaataatgatgccttggtataaaagaaggcttgatgaacgaaagtggtgagattaggggatcgggtgccacgttccggtaccaggatagaatatggatcgggtgtcacgttccgacaccaggatagaatatggatcgggtgccacgttccggtaccaggatagaatatggatcgggtgtcacgttccgacaccaggatagaatatggatcgggtgtcacgttctgacaccaggatagaatatggatcgggtgccacgttccggtgccaggatagtatattgaggagtggagtgtcacgtaaggacacgaggggaataaatatgatgaatcttgaaatatgttaatatatgcaatccaatgaactaaattcccaaataagtatgatgaggaggtgtgagtcctcattgatgtgcttggtgatgcaaccaagggttatggtaattgcaaatgctgcatgctaaggatattagttaattttatgatattgcttaatacatact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="51538" stop="50346"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="51238" g_stop="51136" g_length="103"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="103" r_length="103" r_score="0.971"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="51135" i_stop="51059" i_length="77">
            <donor d_prob="0.000" d_score="0.96"/>
            <acceptor a_prob="0.000" a_score="0.96"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="51058" g_stop="50644" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="104" r_stop="515" r_length="412" r_score="0.908"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E242359" ref_strand="+">
        <total_alignment_score>0.921</total_alignment_score>
        <cumulative_length_of_scored_exons>518</cumulative_length_of_scored_exons>
        <coverage percentage="1.006" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E242359" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="51238" e_stop="51136"/>
          <exon e_start="51058" e_stop="50644"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CCTAATCTACTTTGTTAATGATGATGCCTTGGTATAAAAGAAGGCTTGATGAACGAAAGTAGTGAGATTAGGGGATCGGGTGCCACGTTCCAGTACCAGGATAGTATATGAGGATCGGAGTGTCACGTCTCGACACCAGGATAGTATATGGATCGGGTGCCACATTCCAGTACCGGGATAGAATATGGATTGGGTGTCACGTTCTGACACCAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATATGGATCGGGTGTCACGTTCCGACACCAGGATAGAATATGGATCGGGTGCCACATTCCGGTACCATGATAGTATATGAGGATCGGAGAGTCACGTTCCGACACCAGGATAGTATATTGAGGAGCGGAGTGTCACGTACCGACACGAGGGGAATAAACATAATGAATTTTGAAAGATGTTAATATATTCAATCTAATTAACCTAATTCCCAAATGAGTATGATGAGGAGGCGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAGTTGATTTTATGATATTGCTTAATATATATT</genome_strand>
        <mrna_strand>CCTAATCTACTTTGTTAATAATGATGCCTTGGTATAAAAGAAGGCTTGATGAACGAAAGTGGTGAGATTAGGGGATCGGGTGCCACGTTCCGGTACCAGGATA.............................................................................GAATATGGATCGGGTGTCACGTTCCGACACCAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATATGGATCGGGTGTCACGTTCCGACACCAGGATAGAATATGGATCGGGTGTCACGTTCTGACACCAGGATAGAATAT--GGATCGG-GTGCCACGTTCCGGTGCCAGGATAGTATATTGAGGAGTGGAGTGTCACGTAAGGACACGAGGGGAATAAATATGATGAATCTTGAAATATGTTAATATATGCAATCCAATGAACTAAATTCCCAAATAAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGATGCAACCAAGGGTTATGGTAATTGCAAATGCTGCATGCTAAGGATATTAGTTAATTTTATGATATTGCTTAATACATACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E577888" ref_strand="+" ref_description="SGN-E577888 [LE08BA01]">
      <seq>ctacatctcctaccatacaatgcttcaaatggagccatatcaatgcttgattgatagctattattgtatgaaaactccgctaagggtaggaagctatcccaatgaccaccaaactctatcacacacgcacgaagcatattctccaacacttgaatcgttcgctcagactgaccatcgggagaactagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="52409" stop="53186"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="52709" g_stop="52885" g_length="177"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="177" r_length="177" r_score="0.904"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E577888" ref_strand="+">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>177</cumulative_length_of_scored_exons>
        <coverage percentage="0.941" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E577888" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="52709" e_stop="52885"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTACATCTTCTCCCATATAGTGCCTCAAATGGGGCCATATCAATGCTTGAGTGATAGCTATTGTTGTAGGAGAACTCTGCTAAGGGTAAGAAGCTATCCCAATGGCCACCAAATTCTATCACACATGCACGAAGCATATCCTCCAACACTTGAATCGTTCGCTGAGACTGACCATCG</genome_strand>
        <mrna_strand>CTACATCTCCTACCATACAATGCTTCAAATGGAGCCATATCAATGCTTGATTGATAGCTATTATTGTATGAAAACTCCGCTAAGGGTAGGAAGCTATCCCAATGACCACCAAACTCTATCACACACGCACGAAGCATATTCTCCAACACTTGAATCGTTCGCTCAGACTGACCATCG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E379315" ref_strand="+" ref_description="SGN-E379315 [TUS-1-J2]">
      <seq>gaatcccttgacaaatcggcggtagtagctagctaacccaacaaagctccttatttctgacacattagtaggtcttacccaattcttcactgtctcaatcttagaaggatccaccatcactccatccttagaaaccacgttccccaagaaggacactacatctagccaaaactcacacttagagaacttggcataaaactttttctccctcaacatttccaataccattctcaaatgctcttcatgttcctccttacttttagagtatatcagtatatcatcaataaatacgatcacaaagagatccaaatatggcttaaaaatcccttttattaaactcataaacgcagcaggggcattcataagaccaaaagacatcactacaaatttgtaatgcccatacctggttctaaaagcagtctttggcacatccgttgcccgtattttcaattgatgataaccggatctcaagtcaatcttagaaaagacacaagcaccttgtaactgatcgaacaagtcattaatgcgaggaagaggatacttgttctttatggttaccttgttncactgccggtagcctatgcacatccgaaaactccaatccttcttctttacaaacaaaaccggagcaccccaaggagatgcagttggtctaatgaagcctttgctcacaactctttgaagtggtcttttaactctcttaactctgcgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="53890" stop="55199"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54190" g_stop="54899" g_length="710"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="712" r_length="712" r_score="0.917"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E379315" ref_strand="+">
        <total_alignment_score>0.917</total_alignment_score>
        <cumulative_length_of_scored_exons>710</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E379315" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54190" e_stop="54899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCCCTTGACAAATCGGCGGTAGTAGCTAGCTAAACCAACAAAACTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTGGAAACCACGTGCCCCAAGAAGGACACTGCATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCCTCATATTCTTTCTTGCTCTATGAGTATATCAGTATATCATCAATAAATACGATCACGAAGAGGTAAAAATAAGGCTTAAAAATCCCGTTCATCAAGCTCATGAA--C-GCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCTTACCTAGTTTGAAAAGCAGTTTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAAAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTTATCAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTCAACTGTCGGTAGTCTATGCACATCTGAAAACTCCCATCCTTCTTCTTCACAAACAAAGCCGGAGCACCCCAAGGGGATGCACTTGGTCTAATGAAGCCTTTGCTCAACAACTCTTGAAGTTGGGCTTTTAACTCTCTTAACTCCGCGG</genome_strand>
        <mrna_strand>GAATCCCTTGACAAATCGGCGGTAGTAGCTAGCTAACCCAACAAAGCTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTAGAAACCACGTTCCCCAAGAAGGACACTACATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAACTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCTTCATGTTCCTCCTTACTTTTAGAGTATATCAGTATATCATCAATAAATACGATCACAAAGAGATCCAAATATGGCTTAAAAATCCCTTTTATTAAACTCATAAACGCAGCAGGGGCATTCATAAGACCAAAAGACATCACTACAAATTTGTAATGCCCATACCTGGTTCTAAAAGCAGTCTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAGAAAAGACACAAGCACCTTGTAACTGATCGAACAAGTCATTAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTNCACTGCCGGTAGCCTATGCACATCCGAAAACTCCAATCCTTCTTCTTTACAAACAAAACCGGAGCACCCCAAGGAGATGCAGTTGGTCTAATGAAGCCTTTGCTC-ACAACTCTTTGAAGTGGTCTTTTAACTCTCTTAACTCTGCGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E375319" ref_strand="+" ref_description="SGN-E375319 [TUS-15-F18]">
      <seq>gaatcccttgacaaatcggcggtagtagctagctaacccaacaaagctccttatttctgacacattagtaggtcttacccaattcttcactgtctcaatcttagaaggatccaccatcactccatccttagaaaccacgttccccaagaaggacactacatctagccaaaactcacacttagagaacttggcataaaactttttctccctcaacatttccaataccattctcaaatgctcttcatgttcctccttacttttagagtatatcagtatatcatcaataaatacgatcacaaagagatccaaatatggcttaaaaatcccttttattaaactcataaacgcagcaggggcattcataagaccaaaagacatcactacaaatttgtaatgcccatacctggttctaaaagcagtctttggcacatccgttgcccgtattttcaattgatgataaccggatctcaagtcaatcttagaaaagacacaagcaccttgtaactgatcgaacaagtcattaatgcgaggaagaggatacttgttctttatggttaccttgttcaactgccggtagcctatgcacatccgaaaac</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="53890" stop="55082"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54190" g_stop="54782" g_length="593"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="596" r_length="596" r_score="0.924"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E375319" ref_strand="+">
        <total_alignment_score>0.924</total_alignment_score>
        <cumulative_length_of_scored_exons>593</cumulative_length_of_scored_exons>
        <coverage percentage="0.995" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E375319" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54190" e_stop="54782"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCCCTTGACAAATCGGCGGTAGTAGCTAGCTAAACCAACAAAACTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTGGAAACCACGTGCCCCAAGAAGGACACTGCATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCCTCATATTCTTTCTTGCTCTATGAGTATATCAGTATATCATCAATAAATACGATCACGAAGAGGTAAAAATAAGGCTTAAAAATCCCGTTCATCAAGCTCATGAA--C-GCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCTTACCTAGTTTGAAAAGCAGTTTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAAAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTTATCAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTCAACTGTCGGTAGTCTATGCACATCTGAAAAC</genome_strand>
        <mrna_strand>GAATCCCTTGACAAATCGGCGGTAGTAGCTAGCTAACCCAACAAAGCTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTAGAAACCACGTTCCCCAAGAAGGACACTACATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAACTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCTTCATGTTCCTCCTTACTTTTAGAGTATATCAGTATATCATCAATAAATACGATCACAAAGAGATCCAAATATGGCTTAAAAATCCCTTTTATTAAACTCATAAACGCAGCAGGGGCATTCATAAGACCAAAAGACATCACTACAAATTTGTAATGCCCATACCTGGTTCTAAAAGCAGTCTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAGAAAAGACACAAGCACCTTGTAACTGATCGAACAAGTCATTAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTCAACTGCCGGTAGCCTATGCACATCCGAAAAC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E204434" ref_strand="+" ref_description="SGN-E204434 [cLEC-13-J16]">
      <seq>gaatcccttgacaaatcggcggtagtagctagctaacccaacaaagctccttatttctgacacattagtaggtcttacccaattcttcactgtctcaatcttagaaggatccaccatcactccatccttagaaaccacgttccccaagaaggacactacatctagccaaaactcacacttagagaacttggcataaaactttttctccctcaacatttccaataccattctcaaatgctcttcatgttcctccttacttttagagtatatcagtatatcatcaataaatacgatcacaaagagatccaaatatggcttaaaaatcccttttattaaactcataaacgcagcaggggcattcataagaccaaaagacatcactacaaatttgtaatgcccatacctggttctaaaagcagtctttggcacatccgttgcccgtattttcaattgatgataaccggatctcaagtcaatcttagaaaagacacaagcaccttgtaactgatcgaacaagtcattaatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="53890" stop="55012"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54190" g_stop="54712" g_length="523"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="526" r_length="526" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E204434" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>523</cumulative_length_of_scored_exons>
        <coverage percentage="0.994" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E204434" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54190" e_stop="54712"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GATTCCCTTGACAAATCGGCGGTAGTAGCTAGCTAAACCAACAAAACTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTGGAAACCACGTGCCCCAAGAAGGACACTGCATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCCTCATATTCTTTCTTGCTCTATGAGTATATCAGTATATCATCAATAAATACGATCACGAAGAGGTAAAAATAAGGCTTAAAAATCCCGTTCATCAAGCTCATGAA--C-GCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCTTACCTAGTTTGAAAAGCAGTTTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAAAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTTATCAATG</genome_strand>
        <mrna_strand>GAATCCCTTGACAAATCGGCGGTAGTAGCTAGCTAACCCAACAAAGCTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTAGAAACCACGTTCCCCAAGAAGGACACTACATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAACTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCTTCATGTTCCTCCTTACTTTTAGAGTATATCAGTATATCATCAATAAATACGATCACAAAGAGATCCAAATATGGCTTAAAAATCCCTTTTATTAAACTCATAAACGCAGCAGGGGCATTCATAAGACCAAAAGACATCACTACAAATTTGTAATGCCCATACCTGGTTCTAAAAGCAGTCTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAGAAAAGACACAAGCACCTTGTAACTGATCGAACAAGTCATTAATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E368762" ref_strand="+" ref_description="SGN-E368762 [TUS-22-P2]">
      <seq>gtctcacccaattcttcactgtctcaatcttacaaggatccaccatcactccatccttagaaaccacgtgccccaagaaggacactgcatctatccaaaactcacacttagagaacttggcataaagctttttctccctcaacatttctaatacaattctcaaatgctcctcatgttccttcttactattagagtatatcagtatatcatcaataaacatgatgacaaagagatccaaatatggcttaaaatcccgttcatcaagctcatgaacgcagcaggggcattcgtaagaccaaaagacatcactacaaattcgtaatgcccatacctggttctaaaagcagtctttggcacatccgttgcccgtattttcaattgatgataaccggatctcaagtcaatcttagagaagacacaagcaccttgtaactgatcgaacaagtcatcaatgcgaggaagtggatacttgttcttaatagttaccttgttcaactgccggtagtctatgcacatccgaaaactcccatccttcttcttcacaaaccaaaccggagcaccccaaggagatgcacttggtctaatgaagactttgctcaaaaactcttgaagttgggcctttaactctcttaactccgcgggagccattctataagggggtatagaaatggggcgagtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="53961" stop="55236"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54261" g_stop="54937" g_length="677"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="679" r_length="679" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E368762" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>677</cumulative_length_of_scored_exons>
        <coverage percentage="0.997" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E368762" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54261" e_stop="54937"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTGGAAACCACGTGCCCCAAGAAGGACACTGCATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCCTCATATTCTTTCTTGCTCTATGAGTATATCAGTATATCATCAATAAATACGATCACGAAGAGGTAAAAATAAGGCTTAAAAATCCCGTTCATCAAGCTCATGAA--C-GCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCTTACCTAGTTTGAAAAGCAGTTTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAAAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTTATCAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTCAACTGTCGGTAGTCTATGCACATCTGAAAACTCCCATCCTTCTTCTTCACAAACAAAGCCGGAGCACCCCAAGGGGATGCACTTGGTCTAATGAAGCCTTTGCTCAACAACTCTTGAAGTTGGGCTTTTAACTCTCTTAACTCCGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGAGTA</genome_strand>
        <mrna_strand>GTCTCACCCAATTCTTCACTGTCTCAATCTTACAAGGATCCACCATCACTCCATCCTTAGAAACCACGTGCCCCAAGAAGGACACTGCATCTATCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCTAATACAATTCTCAAATGCTCCTCATGTTCCTTCTTACTATTAGAGTATATCAGTATATCATCAATAAACATGATGACAAAGAGATCCAAATATGGCTT-AAAATCCCGTTCATCAAGCTCATGAACGCAGCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCATACCTGGTTCTAAAAGCAGTCTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAGAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTCATCAATGCGAGGAAGTGGATACTTGTTCTTAATAGTTACCTTGTTCAACTGCCGGTAGTCTATGCACATCCGAAAACTCCCATCCTTCTTCTTCACAAACCAAACCGGAGCACCCCAAGGAGATGCACTTGGTCTAATGAAGACTTTGCTCAAAAACTCTTGAAGTTGGGCCTTTAACTCTCTTAACTCCGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGAGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E353359" ref_strand="-" ref_description="SGN-E353359 [cTOS-15-G18]">
      <seq>gcaaggtaggatgtaggtcaatgcatatgaggctaagtttcgtgcactatccagatatgccactcaactttgtttcagtccacaagagaggattcgtcgttttgtgaaagggttgaggtcagagttgcggatttcagcgttacaggtagcggctacggcaaaatccttgcaagaaatggttgacttcgatgtaattctgggtatgacttggctttctccaaattttgcaatcttggattgtaatgctaaaaccgtgacgttagccaagcctgggacagatctgttagtgtaggagggtgactacacttccaatccggtgcgtatcatctcctttcttcgtgctaagaaaatggttagtaaagggtgtttagctttcttggcacatctcaaggataacactacccaagtaccttcgattgactcagtttcagtagttcgtgagtttatggatgtgttccctgcagatcatcctggtatgccaccggatagggatattgacttctgtattgatctcgaaccgggcacacgccccatttttatacccccttatagaatggctcccgcagagttaagagagttaaaggcacaacttcaagagttattgaacaaaggcttcattagaccaagtgcatctccttggggtgctccggttttgttgtaaagatcggcagtttttgaatgtgcatagactaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="56503" stop="46603"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="56203" g_stop="56031" g_length="173"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="173" r_length="173" r_score="0.942"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="56030" i_stop="55287" i_length="744">
            <donor d_prob="0.000" d_score="0.94"/>
            <acceptor a_prob="0.000" a_score="0.82"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="55286" g_stop="54759" g_length="528"/>
          <reference_exon_boundary r_type="cDNA" r_start="174" r_stop="694" r_length="521" r_score="0.892"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E353359" ref_strand="-">
        <total_alignment_score>0.904</total_alignment_score>
        <cumulative_length_of_scored_exons>701</cumulative_length_of_scored_exons>
        <coverage percentage="1.010" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E353359" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="56203" e_stop="56031"/>
          <exon e_start="55286" e_stop="54759"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCAAGGTAGGATGTCGGTCAATGCATATGAGGCTAAGTTTCGTGCACTATCCCGGTATGCCACTCAACTTTGTTTCAGTCCACAAGAGCGGATTCGTCGTTTTGTGAAGGAGTTGGGGTCAGAGTTGCAGATTTCAGCCTTACAGGTAGCGGCTACGGCAAAATCCTTCCAAGATGTGGTAGACTTCGTGATAGAGGTGGAAGGAGTGAAGCCAGATGACTTCACCATGGCAACTACATCAAAAAGGTTTTGAAAGGGAGGTGAGTTTAATGGTTCTTTCTCTAGAGGACAAGGTTCCGGTGGTTACTTAGTTAGACTCATTCAGTCTTCACTACAGACTGTAGTTGGGGGTCCACCTCAGACTGGTCAACACTTCTCTGAGAGACCTATGCATGAAACCATAGAGTGTTATGGATGTGGGGAGATTGGACATATTAAGAGATATTGTCCAAAACAGAATTACAGACCTCTAAATGTTAGAGGTAGAGGTGGTCATGGTAGAGGCCGTCATTCTGGAGGATGTGGTGGTCGAGGTAATGGTGGTCACCAGAACAGCCACGGTGATGGGCAACCTGGAGCCACTACATCACAACATGGTAGGGGCAACGGCAAGACGGGTGAGAGGGCCCATTGCTACGCTTTCCCTGGGAGATCTGAAGCGGAGACATCTGATGCTGTCATCACAGGTAATCTTCTGGTGTGTGATTGCATGGCTTCTGTATTGTTTGATCCTTGATCAACATTTTCTTATGTATCTTCCTCATTTGCTAAAGGTCTAAATTTACATTGTGAATTATTTGATTTGCCTATTCGTGTTTCTACTCCGGTGGGTGAGTCTGTGGTAGTTGAAAAGGTATATAGATCTTGTTTGGTGAACTTTCTAGGGAGCAACACTTATGTAGATTTGGTTATCTTAGAAATGGATGATTTTGATGTAATTCTGGGTATGACTTTGCTTTCTGTGCAATTTGCGATCTTGGATTGTAATGCTAAAACAGTGATGTTAGCCAAGCCTAGGACAGATCCGTTAGTGTGGGAGGGTTACTACACTTCCAATCCGGTGCGTATCATCTCCTTTATTTGTGCTAAGAAAATGATTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATGACACTATCCAAGTATCTTCAATTGAGTCGGTTTCAGTGGTCCGTGAGTTTCTGGATGTGTTCCCTGCAGACCTCCCTGGTATGCCACCAGATAGGGATATTGACTTCTGTATTGATCTTGAACCGGGTACTCGCCCCATTTCTATACCCCCTTATAGAATGGCTCCCGCGGAGTTAAGAGAGTTAAAAGCCCAACTTCAAGAGTTGTTGAGCAAAGGCTTCATTAGACCAAGTGCATCCCCTTGGGGTGCTCCGGCTTTGTTTGTGAAGAAGAAGGATGGGAGTTTTCAGATGTGCATAGACTACC</genome_strand>
        <mrna_strand>GCAAGGTAGGATGTAGGTCAATGCATATGAGGCTAAGTTTCGTGCACTATCCAGATATGCCACTCAACTTTGTTTCAGTCCACAAGAGAGGATTCGTCGTTTTGTGAAAGGGTTGAGGTCAGAGTTGCGGATTTCAGCGTTACAGGTAGCGGCTACGGCAAAATCCTTGCAAG........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................AAATGGTTGACTTCGATGTAATTCTGGGTATGACTTGGCTTTCTCCAAATTTTGCAATCTTGGATTGTAATGCTAAAACCGTGACGTTAGCCAAGCCTGGGACAGATCTGTTAGTGTAGGAGGGTGACTACACTTCCAATCCGGTGCGTATCATCTCCTTTCTTCGTGCTAAGAAAATGGTTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATAACACTACCCAAGTACCTTCGATTGACTCAGTTTCAGTAGTTCGTGAGTTTATGGATGTGTTCCCTGCAGATCATCCTGGTATGCCACCGGATAGGGATATTGACTTCTGTATTGATCTCGAACCGGGCACACGCCCCATTTTTATACCCCCTTATAGAATGGCTCCCGCAGAGTTAAGAGAGTTAAAGGCACAACTTCAAGAGTTATTGAACAAAGGCTTCATTAGACCAAGTGCATCTCCTTGGGGTGCTCCGGTTTTG-TTGT--A-AAG-A--TCGGCAGTTTTTGAATGTGCATAGACTACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E355244" ref_strand="+" ref_description="SGN-E355244 [cTOS-18-K20]">
      <seq>cggaaactcccatccttcttcttcacaaacaaaatcggagcaccccaaggagatgcacttggtctaatgaaacctttgctcaacaactcttgaagttgggcctttaactctcttaactctacgggagccattctataagggggtatagaaatggggcgtgtgcccggttcaagatcgatacagaagtcaatatccctatctggtggcataccaggaagatctgcagggaacacatccaaaaactcacagactataaaaaccgactcaatcgaaggtacttgggtagtgtcatccttgagatgtgccaagaaagctaaacaccctttactaaccattttcttagcacgaagaaaggagatgatgcacaccggattggaagtgtagtcaccctcccacactaacggatctgtcccaggcttggctaatgtcaccgttttagcattacaatccaagatcgcaaattgcggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaaatctacataagtgttgctccccacaaagttcaccaaacaagacctatataccttttcaactaccacagactcacccaccggagtagaaacacgaataggcatatcaagtaattcacaatgtaaatttagaccgttagcaaatgaggaagatacantagaaaacgtggatcccaggatcaacaatacagaagccatgcaatcacaatcgaaagattacctgtgatgacagcatctaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="34978" stop="55837"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54776" g_stop="55537" g_length="762"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="761" r_length="761" r_score="0.925"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E355244" ref_strand="+">
        <total_alignment_score>0.925</total_alignment_score>
        <cumulative_length_of_scored_exons>762</cumulative_length_of_scored_exons>
        <coverage percentage="1.001" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E355244" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54776" e_stop="55537"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAACTCCCATCCTTCTTCTTCACAAACAAAGCCGGAGCACCCCAAGGGGATGCACTTGGTCTAATGAAGCCTTTGCTCAACAACTCTTGAAGTTGGGCTTTTAACTCTCTTAACTCCGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGAGTACCCGGTTCAAGATCAATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGGAGGTCTGCAGGGAACACATCCAGAAACTCACGGACCACTGAAACCGACTCAATTGAAGATACTTGGATAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAATCATTTTCTTAGCACAAATAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTAACCCTCCCACACTAACGGATCTGTCCTAGGCTTGGCTAACATCACTGTTTTAGCATTACAATCCAAGATCGCAAATTGCACAGAAAGCAAAGTCATACCCAGAATTACATCAAAATCATCCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCTAGAAAGTTCACCAAACAAGATCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCAAATCAAATAATTCACAATGTAAATTTAGACCTTTAGCAAATGAGGAAGATACATAAGAAAATGTTGAT-CAAGGATCAAACAATACAGAAGCCATGCAATCACACACCAGAAGATTACCTGTGATGACAGCATCAGAT</genome_strand>
        <mrna_strand>CGGAAACTCCCATCCTTCTTCTTCACAAACAAAATCGGAGCACCCCAAGGAGATGCACTTGGTCTAATGAAACCTTTGCTCAACAACTCTTGAAGTTGGGCCTTTAACTCTCTTAACTCTACGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGTGTGCCCGGTTCAAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAAAAACTCACAGACTATAAAAACCGACTCAATCGAAGGTACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGCACGAAGAAAGGAGATGATGCACACCGGATTGGAAGTGTAGTCACCCTCCCACACTAACGGATCTGTCCCAGGCTTGGCTAATGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCCACAAAGTTCACCAAACAAGACCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATATCAAGTAATTCACAATGTAAATTTAGACCGTTAGCAAATGAGGAAGATACANTAGAAAACGTGGATCCCAGGATC-AACAATACAGAAGCCATGCAATCACA-ATCGAAAGATTACCTGTGATGACAGCATCTAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E351414" ref_strand="+" ref_description="SGN-E351414 [cTOS-12-D7]">
      <seq>cggaaactcccatccttcttcttcacaaacaaaatcggagcaccccaaggagatgcacttggtctaatgaaacctttgctcaacaactcttgaagttgggcctttaactctcttaactctacgggagccattctataagggggtatagaaatggggcgtgtgcccggttcaagatcgatacagaagtcaatatccctatctggtggcataccaggaagatctgcagggaacacatccaaaaactcacagactataaaaaccgactcaatcgaaggtacttgggtagtgtcatccttgagatgtgccaagaaagctaaacaccctttactaaccattttcttagcacgaagaaaggagatgatgcacaccggattggaagtgtagtcaccctcccacactaacggatctgtcccaggcttggctaatgtcaccgttttagcattacaatccaagatcgcaaattgcggagaaagccaagtcatacccagaattacatcaaaatcaaccatttctaagataaccaaatctacataagtgttgctccccacaaagttcaccaaacaagacctatataccttttcaactaccacagactcacccaccggagtagaaacacgaataggcatatcaagtaattcacaatgtaaatttagaccgttag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="+" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="54477" stop="55736"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="54776" g_stop="55436" g_length="661"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="661" r_length="661" r_score="0.935"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="+" ref_id="SGN-E351414" ref_strand="+">
        <total_alignment_score>0.935</total_alignment_score>
        <cumulative_length_of_scored_exons>661</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E351414" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="54776" e_stop="55436"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAAACTCCCATCCTTCTTCTTCACAAACAAAGCCGGAGCACCCCAAGGGGATGCACTTGGTCTAATGAAGCCTTTGCTCAACAACTCTTGAAGTTGGGCTTTTAACTCTCTTAACTCCGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGAGTACCCGGTTCAAGATCAATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGGAGGTCTGCAGGGAACACATCCAGAAACTCACGGACCACTGAAACCGACTCAATTGAAGATACTTGGATAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAATCATTTTCTTAGCACAAATAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTAACCCTCCCACACTAACGGATCTGTCCTAGGCTTGGCTAACATCACTGTTTTAGCATTACAATCCAAGATCGCAAATTGCACAGAAAGCAAAGTCATACCCAGAATTACATCAAAATCATCCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCTAGAAAGTTCACCAAACAAGATCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCAAATCAAATAATTCACAATGTAAATTTAGACCTTTAG</genome_strand>
        <mrna_strand>CGGAAACTCCCATCCTTCTTCTTCACAAACAAAATCGGAGCACCCCAAGGAGATGCACTTGGTCTAATGAAACCTTTGCTCAACAACTCTTGAAGTTGGGCCTTTAACTCTCTTAACTCTACGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGTGTGCCCGGTTCAAGATCGATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGAAGATCTGCAGGGAACACATCCAAAAACTCACAGACTATAAAAACCGACTCAATCGAAGGTACTTGGGTAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAACCATTTTCTTAGCACGAAGAAAGGAGATGATGCACACCGGATTGGAAGTGTAGTCACCCTCCCACACTAACGGATCTGTCCCAGGCTTGGCTAATGTCACCGTTTTAGCATTACAATCCAAGATCGCAAATTGCGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCCACAAAGTTCACCAAACAAGACCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCATATCAAGTAATTCACAATGTAAATTTAGACCGTTAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E392027" ref_strand="+" ref_description="SGN-E392027 [TUS-24-O2](-)">
      <seq>cagcaaacgtgccatcgtgttcaactcaacagtaattcaagccagtcttactacatcggaaattcagggtgagctaatgcttctagcttggactggatcttcttcttcaagtcttgatgccttgaacttccggcatggactagcttcttatgtatttttagcttttagactactcttagtttagtcatttgatcgtagatgttcttgtggtgatgacttccagattttggggaataatagatgttgaattttagaagttaatgaattggtctgtatttaatgagtttaagtcttccacattactttctgttgatattatattgaaatgttaaggttagattggttggttcgctcacataggagggtaagtgtgggtgccagtcgcaacccggttttggtcgtgacaaacttggtatcagagcattaggttcgttggtctcatcacacaagaacgagtctagtagagtcttaaggaacggtagggggatgcctttacttttccttgagaggctataagacttttggaaaattccattctttcttctttcgtgctattacttgggtccaattggtatctaggtgatacaaattggtatctgaccatcttcactctatttcgcagatggttagaactagagcaacgactacgccagcatcaacaccagcaccggcgggacagggtgcgactgagccagccactggggctgtgg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="57912" stop="56599"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57612" g_stop="56899" g_length="714"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="710" r_length="710" r_score="0.920"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E392027" ref_strand="+">
        <total_alignment_score>0.920</total_alignment_score>
        <cumulative_length_of_scored_exons>714</cumulative_length_of_scored_exons>
        <coverage percentage="1.006" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E392027" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="57612" e_stop="56899"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGCAAACGTGCCGTCGTCTTCAACTCAACAGTAATTCAAGTTAGTCTTTACTACACCGGAAATTTAGGGTGAGCTAATGATTCTAGCTTGGAGTGGATCTTCTTCTTCAAGTCTTGATGCCCTGAACTTCCGGCATGGACTAGCTT-TTA-CTAGTTTTAGCTTTTAGAATACTCTTAGTTTAGT-AATTGATCATAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGAATAATAGATGTTGAGTTTTAGAAGTTAATGAATTGGT-TTTATTTAATGAGTTTGAGTCTTCCGCATTATTTGCTGTTGATATTATATTGAAATGTTAGAGTTTAGATTGGTTGGTTCGCTCACATAGGAGGGTAAGTGTGGGTGCCAGTCACGGTCCGGATTTGGGTCGTGACAAACTTGGTATCAGAGCATTAGGTGCGTTGGTCTCATCACACAAGAACGAGTCTAGTAGAGTCTTAAGGAACGGTAGGGGGACGCCTTTACTTTTCTTTGAGAGGCTATAAGACCTTAGGAAAATTCCATTCTTTCATTCTTTCTTTCGTGCTACTACTTGAATCCAATTGGTATCTAGGTGATACAAATTGGTATCTGACCATCTTCACTCTCTTTCGCAGATGGTTAGAACTAGAGCAACGACTACGCCAACATCAACACCAGCACCGGCAGGACAGGGTGCGTCTGAGCCAACCACTGGGGCTGTAG</genome_strand>
        <mrna_strand>CAGCAAACGTGCCATCGTGTTCAACTCAACAGTAATTCAAGCCAGTC-TTACTACATCGGAAATTCAGGGTGAGCTAATGCTTCTAGCTTGGACTGGATCTTCTTCTTCAAGTCTTGATGCCTTGAACTTCCGGCATGGACTAGCTTCTTATGTATTTTTAGCTTTTAGACTACTCTTAGTTTAGTCATTTGATCGTAGATGTTCTTGTGGTGATGACTTCCAGATTTTGGGGAATAATAGATGTTGAATTTTAGAAGTTAATGAATTGGTCTGTATTTAATGAGTTTAAGTCTTCCACATTACTTTCTGTTGATATTATATTGAAATGTTA-AGGTTAGATTGGTTGGTTCGCTCACATAGGAGGGTAAGTGTGGGTGCCAGTCGCAACCCGG-TTTTGGTCGTGACAAACTTGGTATCAGAGCATTAGGTTCGTTGGTCTCATCACACAAGAACGAGTCTAGTAGAGTCTTAAGGAACGGTAGGGGGATGCCTTTACTTTTCCTTGAGAGGCTATAAGACTTTTGGAAAATTCCATTC--T--TTC-TTCTTTCGTGCTATTACTTGGGTCCAATTGGTATCTAGGTGATACAAATTGGTATCTGACCATCTTCACTCTATTTCGCAGATGGTTAGAACTAGAGCAACGACTACGCCAGCATCAACACCAGCACCGGCGGGACAGGGTGCGACTGAGCCAGCCACTGGGGCTGTGG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato" ref_id="SGN-E209683" ref_strand="+" ref_description="SGN-E209683 [cLEC-54-L6]">
      <seq>taatgaactaaattcccaaatgagtatgatgaggaggtgtgagtcctcattgatgtgcttggtgttgtaaccaagggttatggtaactataaatgctgcatgttaaggatattagttgattttatgatattgcttaatacatactgttccctattttgagttggccgatgatatctactcagtacccgtggtttgtactgacccctacttttatgtttatcttcttgttatttgtg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04SLm0030O16-Wr2LQ/GenomeThreader_SGN_E_tomato/un_xed_seqs" temp_id="C04SLm0030O16.1" temp_strand="-" temp_description="C04SLm0030O16.1  CU928679.3 htgs_phase:3 submitted_to_sgn_as:C04SLm0030O16 sequenced_by:sanger upload_account_name:uk">
        <position start="58153" stop="57318"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="57853" g_stop="57618" g_length="236"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="236" r_length="236" r_score="0.932"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04SLm0030O16.1" gen_strand="-" ref_id="SGN-E209683" ref_strand="+">
        <total_alignment_score>0.932</total_alignment_score>
        <cumulative_length_of_scored_exons>236</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04SLm0030O16.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E209683" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="57853" e_stop="57618"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAATGAACCTAATTCCCAAATGAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAATTGATTTTATGATATTGCTTAATATATATTGTTTTCTATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGT-GTTTGTACTGACCCCCTACATTTATGTTT-TCTTCTTTGTTATTTGTG</genome_strand>
        <mrna_strand>TAATGAACTAAATTCCCAAATGAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTATAAATGCTGCATGTTAAGGATATTAGTTGATTTTATGATATTGCTTAATACATACTGTTCCCTATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGTGGTTTGTACTGA-CCCCTACTTTTATGTTTATCTTC-TTGTTATTTGTG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>15</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="38062" PGL_stop="37845"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="38062" e_stop="37845"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.904"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.904">
            <gDNA_exon_boundary e_start="38062" e_stop="37845" 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="38062" stop="37845"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E298638" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="1" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TCATTACACCTGATTTCAGGGTGAGCTAATGCTTCTAGCTTGGACTGGGTCTTCCTCTTCATGTCTTGATGCCTTGAACTTCCGGCATGGACTAGCATTTTCTTATTTTAGCTTCTTAGATACTCTTAGATTTAGTAATTTGAGGCAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGATAATAATAGTTGTTGAGTTTTTAGAAGTTATTCAA</gDNA_template>
            <first_frame> S  L  H  L  I  S  G  *  A  N  A  S  S  L  D  W  V  F  L  F  M  S  *  C  L  E  L  P  A  W  T  S  I  F  L  F  *  L  L  R  Y  S  *  I  *  *  F  E  A  D  V  L  V  M  M  T  S  R  F  W  G  *  *  *  L  L  S  F  *  K  L  F   </first_frame>
            <second_frame>  H  Y  T  *  F  Q  G  E  L  M  L  L  A  W  T  G  S  S  S  S  C  L  D  A  L  N  F  R  H  G  L  A  F  S  Y  F  S  F  L  D  T  L  R  F  S  N  L  R  Q  M  F  L  *  *  *  L  P  D  F  G  D  N  N  S  C  *  V  F  R  S  Y  S  </second_frame>
            <third_frame>   I  T  P  D  F  R  V  S  *  C  F  *  L  G  L  G  L  P  L  H  V  L  M  P  *  T  S  G  M  D  *  H  F  L  I  L  A  S  *  I  L  L  D  L  V  I  *  G  R  C  S  C  D  D  D  F  Q  I  L  G  I  I  I  V  V  E  F  L  E  V  I  Q </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0030O16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="+" PGL_start="47323" PGL_stop="47653"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="47323" e_stop="47653"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.927"/>
        </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="0.927">
            <gDNA_exon_boundary e_start="47323" e_stop="47653" e_length="331"/>
          </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="47323" stop="47653"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E352716" 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>GATCTGCCCCAGGCTTGGCAAACGTCACAGTTTTAGCATTACAATCCAAGATCGCAAAATTCGGAGAAAGCCAAGTCATACCCAGAATTACATCAAAATCAACCATTTATAAGATAACCAAGTCTACATAAGTATTGCTACCCACAAAAGTCACCAGACCAGACCTATATACTTTTTCAACTATCACAGACTAACCCACCGGAGTAGAAACGTGAAGAGGTATGTCAAGCAATTCACAATGTAAATTAAGACCATTAGAAAATGGGGAAGATACATAAGAAAATGTGGATCCAGGATCAAACAATACAGAAGCCATACAATCACAAATCAA</gDNA_template>
            <first_frame> D  L  P  Q  A  W  Q  T  S  Q  F  *  H  Y  N  P  R  S  Q  N  S  E  K  A  K  S  Y  P  E  L  H  Q  N  Q  P  F  I  R  *  P  S  L  H  K  Y  C  Y  P  Q  K  S  P  D  Q  T  Y  I  L  F  Q  L  S  Q  T  N  P  P  E  *  K  R  E  E  V  C  Q  A  I  H  N  V  N  *  D  H  *  K  M  G  K  I  H  K  K  M  W  I  Q  D  Q  T  I  Q  K  P  Y  N  H  K  S  </first_frame>
            <second_frame>  I  C  P  R  L  G  K  R  H  S  F  S  I  T  I  Q  D  R  K  I  R  R  K  P  S  H  T  Q  N  Y  I  K  I  N  H  L  *  D  N  Q  V  Y  I  S  I  A  T  H  K  S  H  Q  T  R  P  I  Y  F  F  N  Y  H  R  L  T  H  R  S  R  N  V  K  R  Y  V  K  Q  F  T  M  *  I  K  T  I  R  K  W  G  R  Y  I  R  K  C  G  S  R  I  K  Q  Y  R  S  H  T  I  T  N  Q </second_frame>
            <third_frame>   S  A  P  G  L  A  N  V  T  V  L  A  L  Q  S  K  I  A  K  F  G  E  S  Q  V  I  P  R  I  T  S  K  S  T  I  Y  K  I  T  K  S  T  *  V  L  L  P  T  K  V  T  R  P  D  L  Y  T  F  S  T  I  T  D  *  P  T  G  V  E  T  *  R  G  M  S  S  N  S  Q  C  K  L  R  P  L  E  N  G  E  D  T  *  E  N  V  D  P  G  S  N  N  T  E  A  I  Q  S  Q  I   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0030O16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="48973" PGL_stop="48422"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="48973" e_stop="48422"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.920"/>
        </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="0.920">
            <gDNA_exon_boundary e_start="48973" e_stop="48422" e_length="552"/>
          </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="48973" stop="48422"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E329287" 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>ACCTAGCCCATATGGTACTAGGGCGGTGACTCCTCACCGACTGAGAAAGTGGTAAGAGAGGGTGAGGAAGGGGAGAATGAACAAGTGTAGAATGAGGAATTGCCACCCCAACCTACCCAGAGATGATCAATCAGGTTCTTGCTTATCTTAGCGGGTTATCTGATCAAGGCCAGAGACCTCCAGTGTTTTCTGCACTAGCACCTCAGGTTCTTGAGGTACAATATGTAGCTACTATGGCTCCCAGCATGGATGCCTCATTGGAAATAGGCACGTTTCCTCGTCTGACTACATGGCCTATAATGAAAAATGATCAGCATGAACTTTTCAGTAAGTTCTTAAAATTGAAACATCCAGTCATCAAGGGTGCTGAATCTAAGGATGCCTACGATTTTCTGGTTGACTGTCATGAGCTACTATACAAGATGGGTATAGTAGAACGGTTTGGTGTTGAGTTTGTGACTTATCAGTTTCAAGGGAACGCCAAAACGTGGTGGCAGTCACATGTTGAGTGTCAACCAATAGAGGCACCACCTATGACTTGGGCATCATTCT</gDNA_template>
            <first_frame> T  *  P  I  W  Y  *  G  G  D  S  S  P  T  E  K  V  V  R  E  G  E  E  G  E  N  E  Q  V  *  N  E  E  L  P  P  Q  P  T  Q  R  *  S  I  R  F  L  L  I  L  A  G  Y  L  I  K  A  R  D  L  Q  C  F  L  H  *  H  L  R  F  L  R  Y  N  M  *  L  L  W  L  P  A  W  M  P  H  W  K  *  A  R  F  L  V  *  L  H  G  L  *  *  K  M  I  S  M  N  F  S  V  S  S  *  N  *  N  I  Q  S  S  R  V  L  N  L  R  M  P  T  I  F  W  L  T  V  M  S  Y  Y  T  R  W  V  *  *  N  G  L  V  L  S  L  *  L  I  S  F  K  G  T  P  K  R  G  G  S  H  M  L  S  V  N  Q  *  R  H  H  L  *  L  G  H  H  S </first_frame>
            <second_frame>  P  S  P  Y  G  T  R  A  V  T  P  H  R  L  R  K  W  *  E  R  V  R  K  G  R  M  N  K  C  R  M  R  N  C  H  P  N  L  P  R  D  D  Q  S  G  S  C  L  S  *  R  V  I  *  S  R  P  E  T  S  S  V  F  C  T  S  T  S  G  S  *  G  T  I  C  S  Y  Y  G  S  Q  H  G  C  L  I  G  N  R  H  V  S  S  S  D  Y  M  A  Y  N  E  K  *  S  A  *  T  F  Q  *  V  L  K  I  E  T  S  S  H  Q  G  C  *  I  *  G  C  L  R  F  S  G  *  L  S  *  A  T  I  Q  D  G  Y  S  R  T  V  W  C  *  V  C  D  L  S  V  S  R  E  R  Q  N  V  V  A  V  T  C  *  V  S  T  N  R  G  T  T  Y  D  L  G  I  I   </second_frame>
            <third_frame>   L  A  H  M  V  L  G  R  *  L  L  T  D  *  E  S  G  K  R  G  *  G  R  G  E  *  T  S  V  E  *  G  I  A  T  P  T  Y  P  E  M  I  N  Q  V  L  A  Y  L  S  G  L  S  D  Q  G  Q  R  P  P  V  F  S  A  L  A  P  Q  V  L  E  V  Q  Y  V  A  T  M  A  P  S  M  D  A  S  L  E  I  G  T  F  P  R  L  T  T  W  P  I  M  K  N  D  Q  H  E  L  F  S  K  F  L  K  L  K  H  P  V  I  K  G  A  E  S  K  D  A  Y  D  F  L  V  D  C  H  E  L  L  Y  K  M  G  I  V  E  R  F  G  V  E  F  V  T  Y  Q  F  Q  G  N  A  K  T  W  W  Q  S  H  V  E  C  Q  P  I  E  A  P  P  M  T  W  A  S  F  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0030O16.1" strand="-"/>
                <serials PGL_serial="3" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="48878" stop="48423"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>456</number_coding_nucleotides>
                  <number_encoded_amino_acids>152</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GIATPTYPEMINQVLAYLSGLSDQGQRPPVFSALAPQVLEVQYVATMAPSMDASLEIGTFPRLTTWPIMKNDQHELFSKFLKLKHPVIKGAESKDAYDFLVDCHELLYKMGIVERFGVEFVTYQFQGNAKTWWQSHVECQPIEAPPMTWASF</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="4" PGL_strand="-" PGL_start="51238" PGL_stop="50553"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="51238" e_stop="51136"/>
            <exon e_start="51058" e_stop="50553"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.971"/>
          <exon-only e_score="0.908"/>
        </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="0.971">
            <gDNA_exon_boundary e_start="51238" e_stop="51136" e_length="103"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="51135" i_stop="51059" i_length="77"/>
          </intron>
          <exon e_serial="2" e_score="0.908">
            <gDNA_exon_boundary e_start="51058" e_stop="50553" e_length="506"/>
          </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="51238" stop="51136"/>
              <exon start="51058" stop="50644"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E242359" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="50788" stop="50553"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209683" 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>CCTAATCTACTTTGTTAATGATGATGCCTTGGTATAAAAGAAGGCTTGATGAACGAAAGTAGTGAGATTAGGGGATCGGGTGCCACGTTCCAGTACCAGGATA : GAATATGGATTGGGTGTCACGTTCTGACACCAGGATAGAATATGGATCGGGTGCCACGTTCCGGTACCAGGATAGAATATGGATCGGGTGTCACGTTCCGACACCAGGATAGAATATGGATCGGGTGCCACATTCCGGTACCATGATAGTATATGAGGATCGGAGAGTCACGTTCCGACACCAGGATAGTATATTGAGGAGCGGAGTGTCACGTACCGACACGAGGGGAATAAACATAATGAATTTTGAAAGATGTTAATATATTCAATCTAATTAACCTAATTCCCAAATGAGTATGATGAGGAGGCGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAGTTGATTTTATGATATTGCTTAATATATATTGTTTTATATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGTGTTTGTACTGACCCCCTACTTTTATGTTTTCTTCTTTGTTATTTGTG</gDNA_template>
            <first_frame> P  N  L  L  C  *  *  *  C  L  G  I  K  E  G  L  M  N  E  S  S  E  I  R  G  S  G  A  T  F  Q  Y  Q  D   : R  I  W  I  G  C  H  V  L  T  P  G  *  N  M  D  R  V  P  R  S  G  T  R  I  E  Y  G  S  G  V  T  F  R  H  Q  D  R  I  W  I  G  C  H  I  P  V  P  *  *  Y  M  R  I  G  E  S  R  S  D  T  R  I  V  Y  *  G  A  E  C  H  V  P  T  R  G  E  *  T  *  *  I  L  K  D  V  N  I  F  N  L  I  N  L  I  P  K  *  V  *  *  G  G  V  S  P  H  *  C  A  W  C  C  N  Q  G  L  W  *  L  *  M  L  H  A  K  D  I  S  *  F  Y  D  I  A  *  Y  I  L  F  Y  I  L  S  W  P  M  I  S  T  Q  Y  P  C  L  Y  *  P  P  T  F  M  F  S  S  L  L  F  V </first_frame>
            <second_frame>  L  I  Y  F  V  N  D  D  A  L  V  *  K  K  A  *  *  T  K  V  V  R  L  G  D  R  V  P  R  S  S  T  R  I  :  E  Y  G  L  G  V  T  F  *  H  Q  D  R  I  W  I  G  C  H  V  P  V  P  G  *  N  M  D  R  V  S  R  S  D  T  R  I  E  Y  G  S  G  A  T  F  R  Y  H  D  S  I  *  G  S  E  S  H  V  P  T  P  G  *  Y  I  E  E  R  S  V  T  Y  R  H  E  G  N  K  H  N  E  F  *  K  M  L  I  Y  S  I  *  L  T  *  F  P  N  E  Y  D  E  E  A  *  V  L  I  D  V  L  G  V  V  T  K  G  Y  G  N  C  K  C  C  M  L  R  I  L  V  D  F  M  I  L  L  N  I  Y  C  F  I  F  *  V  G  R  *  Y  L  L  S  T  R  V  C  T  D  P  L  L  L  C  F  L  L  C  Y  L   </second_frame>
            <third_frame>   *  S  T  L  L  M  M  M  P  W  Y  K  R  R  L  D  E  R  K  *  *  D  *  G  I  G  C  H  V  P  V  P  G  * :   N  M  D  W  V  S  R  S  D  T  R  I  E  Y  G  S  G  A  T  F  R  Y  Q  D  R  I  W  I  G  C  H  V  P  T  P  G  *  N  M  D  R  V  P  H  S  G  T  M  I  V  Y  E  D  R  R  V  T  F  R  H  Q  D  S  I  L  R  S  G  V  S  R  T  D  T  R  G  I  N  I  M  N  F  E  R  C  *  Y  I  Q  S  N  *  P  N  S  Q  M  S  M  M  R  R  R  E  S  S  L  M  C  L  V  L  *  P  R  V  M  V  T  V  N  A  A  C  *  G  Y  *  L  I  L  *  Y  C  L  I  Y  I  V  L  Y  F  E  L  A  D  D  I  Y  S  V  P  V  F  V  L  T  P  Y  F  Y  V  F  F  F  V  I  C  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0030O16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="5" PGL_strand="+" PGL_start="52709" PGL_stop="52885"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="52709" e_stop="52885"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.904"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.904">
            <gDNA_exon_boundary e_start="52709" e_stop="52885" e_length="177"/>
          </exon>
        </exon-intron_info>
        <supporting_evidence xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/supporting_evidence/">
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="52709" stop="52885"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577888" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="5" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>CTACATCTTCTCCCATATAGTGCCTCAAATGGGGCCATATCAATGCTTGAGTGATAGCTATTGTTGTAGGAGAACTCTGCTAAGGGTAAGAAGCTATCCCAATGGCCACCAAATTCTATCACACATGCACGAAGCATATCCTCCAACACTTGAATCGTTCGCTGAGACTGACCATCG</gDNA_template>
            <first_frame> L  H  L  L  P  Y  S  A  S  N  G  A  I  S  M  L  E  *  *  L  L  L  *  E  N  S  A  K  G  K  K  L  S  Q  W  P  P  N  S  I  T  H  A  R  S  I  S  S  N  T  *  I  V  R  *  D  *  P  S </first_frame>
            <second_frame>  Y  I  F  S  H  I  V  P  Q  M  G  P  Y  Q  C  L  S  D  S  Y  C  C  R  R  T  L  L  R  V  R  S  Y  P  N  G  H  Q  I  L  S  H  M  H  E  A  Y  P  P  T  L  E  S  F  A  E  T  D  H   </second_frame>
            <third_frame>   T  S  S  P  I  *  C  L  K  W  G  H  I  N  A  *  V  I  A  I  V  V  G  E  L  C  *  G  *  E  A  I  P  M  A  T  K  F  Y  H  T  C  T  K  H  I  L  Q  H  L  N  R  S  L  R  L  T  I  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0030O16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="6" PGL_strand="+" PGL_start="54190" PGL_stop="55537"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="54190" e_stop="55537"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.925"/>
        </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="0.925">
            <gDNA_exon_boundary e_start="54190" e_stop="55537" e_length="1348"/>
          </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="54190" stop="54899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E379315" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54190" stop="54782"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E375319" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54190" stop="54712"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E204434" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54261" stop="54937"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E368762" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54776" stop="55537"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E355244" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="54776" stop="55436"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E351414" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="6" AGS_serial="1" gDNA_strand="+"/>
          <translation>
            <gDNA_template>GATTCCCTTGACAAATCGGCGGTAGTAGCTAGCTAAACCAACAAAACTCCTTATTTCTGACACATTAGTAGGTCTTACCCAATTCTTCACTGTCTCAATCTTAGAAGGATCCACCATCACTCCATCCTTGGAAACCACGTGCCCCAAGAAGGACACTGCATCTAGCCAAAACTCACACTTAGAGAACTTGGCATAAAGCTTTTTCTCCCTCAACATTTCCAATACCATTCTCAAATGCTCCTCATATTCTTTCTTGCTCTATGAGTATATCAGTATATCATCAATAAATACGATCACGAAGAGGTAAAAATAAGGCTTAAAAATCCCGTTCATCAAGCTCATGAACGCAGGGGCATTCGTAAGACCAAAAGACATCACTACAAATTCGTAATGCCCTTACCTAGTTTGAAAAGCAGTTTTTGGCACATCCGTTGCCCGTATTTTCAATTGATGATAACCGGATCTCAAGTCAATCTTAAAGAAGACACAAGCACCTTGTAACTGATCGAACAAGTTATCAATGCGAGGAAGAGGATACTTGTTCTTTATGGTTACCTTGTTCAACTGTCGGTAGTCTATGCACATCTGAAAACTCCCATCCTTCTTCTTCACAAACAAAGCCGGAGCACCCCAAGGGGATGCACTTGGTCTAATGAAGCCTTTGCTCAACAACTCTTGAAGTTGGGCTTTTAACTCTCTTAACTCCGCGGGAGCCATTCTATAAGGGGGTATAGAAATGGGGCGAGTACCCGGTTCAAGATCAATACAGAAGTCAATATCCCTATCTGGTGGCATACCAGGGAGGTCTGCAGGGAACACATCCAGAAACTCACGGACCACTGAAACCGACTCAATTGAAGATACTTGGATAGTGTCATCCTTGAGATGTGCCAAGAAAGCTAAACACCCTTTACTAATCATTTTCTTAGCACAAATAAAGGAGATGATACGCACCGGATTGGAAGTGTAGTAACCCTCCCACACTAACGGATCTGTCCTAGGCTTGGCTAACATCACTGTTTTAGCATTACAATCCAAGATCGCAAATTGCACAGAAAGCAAAGTCATACCCAGAATTACATCAAAATCATCCATTTCTAAGATAACCAAATCTACATAAGTGTTGCTCCCTAGAAAGTTCACCAAACAAGATCTATATACCTTTTCAACTACCACAGACTCACCCACCGGAGTAGAAACACGAATAGGCAAATCAAATAATTCACAATGTAAATTTAGACCTTTAGCAAATGAGGAAGATACATAAGAAAATGTTGATCAAGGATCAAACAATACAGAAGCCATGCAATCACACACCAGAAGATTACCTGTGATGACAGCATCAGAT</gDNA_template>
            <first_frame> D  S  L  D  K  S  A  V  V  A  S  *  T  N  K  T  P  Y  F  *  H  I  S  R  S  Y  P  I  L  H  C  L  N  L  R  R  I  H  H  H  S  I  L  G  N  H  V  P  Q  E  G  H  C  I  *  P  K  L  T  L  R  E  L  G  I  K  L  F  L  P  Q  H  F  Q  Y  H  S  Q  M  L  L  I  F  F  L  A  L  *  V  Y  Q  Y  I  I  N  K  Y  D  H  E  E  V  K  I  R  L  K  N  P  V  H  Q  A  H  E  R  R  G  I  R  K  T  K  R  H  H  Y  K  F  V  M  P  L  P  S  L  K  S  S  F  W  H  I  R  C  P  Y  F  Q  L  M  I  T  G  S  Q  V  N  L  K  E  D  T  S  T  L  *  L  I  E  Q  V  I  N  A  R  K  R  I  L  V  L  Y  G  Y  L  V  Q  L  S  V  V  Y  A  H  L  K  T  P  I  L  L  L  H  K  Q  S  R  S  T  P  R  G  C  T  W  S  N  E  A  F  A  Q  Q  L  L  K  L  G  F  *  L  S  *  L  R  G  S  H  S  I  R  G  Y  R  N  G  A  S  T  R  F  K  I  N  T  E  V  N  I  P  I  W  W  H  T  R  E  V  C  R  E  H  I  Q  K  L  T  D  H  *  N  R  L  N  *  R  Y  L  D  S  V  I  L  E  M  C  Q  E  S  *  T  P  F  T  N  H  F  L  S  T  N  K  G  D  D  T  H  R  I  G  S  V  V  T  L  P  H  *  R  I  C  P  R  L  G  *  H  H  C  F  S  I  T  I  Q  D  R  K  L  H  R  K  Q  S  H  T  Q  N  Y  I  K  I  I  H  F  *  D  N  Q  I  Y  I  S  V  A  P  *  K  V  H  Q  T  R  S  I  Y  L  F  N  Y  H  R  L  T  H  R  S  R  N  T  N  R  Q  I  K  *  F  T  M  *  I  *  T  F  S  K  *  G  R  Y  I  R  K  C  *  S  R  I  K  Q  Y  R  S  H  A  I  T  H  Q  K  I  T  C  D  D  S  I  R  </first_frame>
            <second_frame>  I  P  L  T  N  R  R  *  *  L  A  K  P  T  K  L  L  I  S  D  T  L  V  G  L  T  Q  F  F  T  V  S  I  L  E  G  S  T  I  T  P  S  L  E  T  T  C  P  K  K  D  T  A  S  S  Q  N  S  H  L  E  N  L  A  *  S  F  F  S  L  N  I  S  N  T  I  L  K  C  S  S  Y  S  F  L  L  Y  E  Y  I  S  I  S  S  I  N  T  I  T  K  R  *  K  *  G  L  K  I  P  F  I  K  L  M  N  A  G  A  F  V  R  P  K  D  I  T  T  N  S  *  C  P  Y  L  V  *  K  A  V  F  G  T  S  V  A  R  I  F  N  *  *  *  P  D  L  K  S  I  L  K  K  T  Q  A  P  C  N  *  S  N  K  L  S  M  R  G  R  G  Y  L  F  F  M  V  T  L  F  N  C  R  *  S  M  H  I  *  K  L  P  S  F  F  F  T  N  K  A  G  A  P  Q  G  D  A  L  G  L  M  K  P  L  L  N  N  S  *  S  W  A  F  N  S  L  N  S  A  G  A  I  L  *  G  G  I  E  M  G  R  V  P  G  S  R  S  I  Q  K  S  I  S  L  S  G  G  I  P  G  R  S  A  G  N  T  S  R  N  S  R  T  T  E  T  D  S  I  E  D  T  W  I  V  S  S  L  R  C  A  K  K  A  K  H  P  L  L  I  I  F  L  A  Q  I  K  E  M  I  R  T  G  L  E  V  *  *  P  S  H  T  N  G  S  V  L  G  L  A  N  I  T  V  L  A  L  Q  S  K  I  A  N  C  T  E  S  K  V  I  P  R  I  T  S  K  S  S  I  S  K  I  T  K  S  T  *  V  L  L  P  R  K  F  T  K  Q  D  L  Y  T  F  S  T  T  T  D  S  P  T  G  V  E  T  R  I  G  K  S  N  N  S  Q  C  K  F  R  P  L  A  N  E  E  D  T  *  E  N  V  D  Q  G  S  N  N  T  E  A  M  Q  S  H  T  R  R  L  P  V  M  T  A  S  D </second_frame>
            <third_frame>   F  P  *  Q  I  G  G  S  S  *  L  N  Q  Q  N  S  L  F  L  T  H  *  *  V  L  P  N  S  S  L  S  Q  S  *  K  D  P  P  S  L  H  P  W  K  P  R  A  P  R  R  T  L  H  L  A  K  T  H  T  *  R  T  W  H  K  A  F  S  P  S  T  F  P  I  P  F  S  N  A  P  H  I  L  S  C  S  M  S  I  S  V  Y  H  Q  *  I  R  S  R  R  G  K  N  K  A  *  K  S  R  S  S  S  S  *  T  Q  G  H  S  *  D  Q  K  T  S  L  Q  I  R  N  A  L  T  *  F  E  K  Q  F  L  A  H  P  L  P  V  F  S  I  D  D  N  R  I  S  S  Q  S  *  R  R  H  K  H  L  V  T  D  R  T  S  Y  Q  C  E  E  E  D  T  C  S  L  W  L  P  C  S  T  V  G  S  L  C  T  S  E  N  S  H  P  S  S  S  Q  T  K  P  E  H  P  K  G  M  H  L  V  *  *  S  L  C  S  T  T  L  E  V  G  L  L  T  L  L  T  P  R  E  P  F  Y  K  G  V  *  K  W  G  E  Y  P  V  Q  D  Q  Y  R  S  Q  Y  P  Y  L  V  A  Y  Q  G  G  L  Q  G  T  H  P  E  T  H  G  P  L  K  P  T  Q  L  K  I  L  G  *  C  H  P  *  D  V  P  R  K  L  N  T  L  Y  *  S  F  S  *  H  K  *  R  R  *  Y  A  P  D  W  K  C  S  N  P  P  T  L  T  D  L  S  *  A  W  L  T  S  L  F  *  H  Y  N  P  R  S  Q  I  A  Q  K  A  K  S  Y  P  E  L  H  Q  N  H  P  F  L  R  *  P  N  L  H  K  C  C  S  L  E  S  S  P  N  K  I  Y  I  P  F  Q  L  P  Q  T  H  P  P  E  *  K  H  E  *  A  N  Q  I  I  H  N  V  N  L  D  L  *  Q  M  R  K  I  H  K  K  M  L  I  K  D  Q  T  I  Q  K  P  C  N  H  T  P  E  D  Y  L  *  *  Q  H  Q   </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0030O16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54914" stop="55159"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>243</number_coding_nucleotides>
                  <number_encoded_amino_acids>81</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GGIEMGRVPGSRSIQKSISLSGGIPGRSAGNTSRNSRTTETDSIEDTWIVSSLRCAKKAKHPLLIIFLAQIKEMIRTGLEV*</predicted_protein_sequence>
            </orf_entry>
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0030O16.1" strand="+"/>
                <serials PGL_serial="6" AGS_serial="1" PPS_serial="2"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="54454" stop="54690"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>234</number_coding_nucleotides>
                  <number_encoded_amino_acids>78</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>VYQYIINKYDHEEVKIRLKNPVHQAHERRGIRKTKRHHYKFVMPLPSLKSSFWHIRCPYFQLMITGSQVNLKEDTSTL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="7" PGL_strand="-" PGL_start="56203" PGL_stop="54759"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="56203" e_stop="56031"/>
            <exon e_start="55286" e_stop="54759"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.000" acc_prob="0.000" e_score="0.942"/>
          <exon-only e_score="0.892"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.942">
            <gDNA_exon_boundary e_start="56203" e_stop="56031" e_length="173"/>
          </exon>
          <intron i_serial="1" don_prob="0.000" acc_prob="0.000">
            <gDNA_intron_boundary i_start="56030" i_stop="55287" i_length="744"/>
          </intron>
          <exon e_serial="2" e_score="0.892">
            <gDNA_exon_boundary e_start="55286" e_stop="54759" e_length="528"/>
          </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="56203" stop="56031"/>
              <exon start="55286" stop="54759"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E353359" strand="-"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="7" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>GCAAGGTAGGATGTCGGTCAATGCATATGAGGCTAAGTTTCGTGCACTATCCCGGTATGCCACTCAACTTTGTTTCAGTCCACAAGAGCGGATTCGTCGTTTTGTGAAGGAGTTGGGGTCAGAGTTGCAGATTTCAGCCTTACAGGTAGCGGCTACGGCAAAATCCTTCCAAG : AAATGGATGATTTTGATGTAATTCTGGGTATGACTTTGCTTTCTGTGCAATTTGCGATCTTGGATTGTAATGCTAAAACAGTGATGTTAGCCAAGCCTAGGACAGATCCGTTAGTGTGGGAGGGTTACTACACTTCCAATCCGGTGCGTATCATCTCCTTTATTTGTGCTAAGAAAATGATTAGTAAAGGGTGTTTAGCTTTCTTGGCACATCTCAAGGATGACACTATCCAAGTATCTTCAATTGAGTCGGTTTCAGTGGTCCGTGAGTTTCTGGATGTGTTCCCTGCAGACCTCCCTGGTATGCCACCAGATAGGGATATTGACTTCTGTATTGATCTTGAACCGGGTACTCGCCCCATTTCTATACCCCCTTATAGAATGGCTCCCGCGGAGTTAAGAGAGTTAAAAGCCCAACTTCAAGAGTTGTTGAGCAAAGGCTTCATTAGACCAAGTGCATCCCCTTGGGGTGCTCCGGCTTTGTTTGTGAAGAAGAAGGATGGGAGTTTTCAGATGTGCATAGACTACC</gDNA_template>
            <first_frame> A  R  *  D  V  G  Q  C  I  *  G  *  V  S  C  T  I  P  V  C  H  S  T  L  F  Q  S  T  R  A  D  S  S  F  C  E  G  V  G  V  R  V  A  D  F  S  L  T  G  S  G  Y  G  K  I  L  P  R :   N  G  *  F  *  C  N  S  G  Y  D  F  A  F  C  A  I  C  D  L  G  L  *  C  *  N  S  D  V  S  Q  A  *  D  R  S  V  S  V  G  G  L  L  H  F  Q  S  G  A  Y  H  L  L  Y  L  C  *  E  N  D  *  *  R  V  F  S  F  L  G  T  S  Q  G  *  H  Y  P  S  I  F  N  *  V  G  F  S  G  P  *  V  S  G  C  V  P  C  R  P  P  W  Y  A  T  R  *  G  Y  *  L  L  Y  *  S  *  T  G  Y  S  P  H  F  Y  T  P  L  *  N  G  S  R  G  V  K  R  V  K  S  P  T  S  R  V  V  E  Q  R  L  H  *  T  K  C  I  P  L  G  C  S  G  F  V  C  E  E  E  G  W  E  F  S  D  V  H  R  L   </first_frame>
            <second_frame>  Q  G  R  M  S  V  N  A  Y  E  A  K  F  R  A  L  S  R  Y  A  T  Q  L  C  F  S  P  Q  E  R  I  R  R  F  V  K  E  L  G  S  E  L  Q  I  S  A  L  Q  V  A  A  T  A  K  S  F  Q   : E  M  D  D  F  D  V  I  L  G  M  T  L  L  S  V  Q  F  A  I  L  D  C  N  A  K  T  V  M  L  A  K  P  R  T  D  P  L  V  W  E  G  Y  Y  T  S  N  P  V  R  I  I  S  F  I  C  A  K  K  M  I  S  K  G  C  L  A  F  L  A  H  L  K  D  D  T  I  Q  V  S  S  I  E  S  V  S  V  V  R  E  F  L  D  V  F  P  A  D  L  P  G  M  P  P  D  R  D  I  D  F  C  I  D  L  E  P  G  T  R  P  I  S  I  P  P  Y  R  M  A  P  A  E  L  R  E  L  K  A  Q  L  Q  E  L  L  S  K  G  F  I  R  P  S  A  S  P  W  G  A  P  A  L  F  V  K  K  K  D  G  S  F  Q  M  C  I  D  Y  </second_frame>
            <third_frame>   K  V  G  C  R  S  M  H  M  R  L  S  F  V  H  Y  P  G  M  P  L  N  F  V  S  V  H  K  S  G  F  V  V  L  *  R  S  W  G  Q  S  C  R  F  Q  P  Y  R  *  R  L  R  Q  N  P  S  K  :  K  W  M  I  L  M  *  F  W  V  *  L  C  F  L  C  N  L  R  S  W  I  V  M  L  K  Q  *  C  *  P  S  L  G  Q  I  R  *  C  G  R  V  T  T  L  P  I  R  C  V  S  S  P  L  F  V  L  R  K  *  L  V  K  G  V  *  L  S  W  H  I  S  R  M  T  L  S  K  Y  L  Q  L  S  R  F  Q  W  S  V  S  F  W  M  C  S  L  Q  T  S  L  V  C  H  Q  I  G  I  L  T  S  V  L  I  L  N  R  V  L  A  P  F  L  Y  P  L  I  E  W  L  P  R  S  *  E  S  *  K  P  N  F  K  S  C  *  A  K  A  S  L  D  Q  V  H  P  L  G  V  L  R  L  C  L  *  R  R  R  M  G  V  F  R  C  A  *  T  T </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0030O16.1" strand="-"/>
                <serials PGL_serial="7" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="56202" stop="56031"/>
                    <exon start="55286" stop="54760"/>
                  </exon_boundaries>
                  <frame>1</frame>
                  <number_coding_nucleotides>699</number_coding_nucleotides>
                  <number_encoded_amino_acids>233</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>QGRMSVNAYEAKFRALSRYATQLCFSPQERIRRFVKELGSELQISALQVAATAKSFQEMDDFDVILGMTLLSVQFAILDCNAKTVMLAKPRTDPLVWEGYYTSNPVRIISFICAKKMISKGCLAFLAHLKDDTIQVSSIESVSVVREFLDVFPADLPGMPPDRDIDFCIDLEPGTRPISIPPYRMAPAELRELKAQLQELLSKGFIRPSASPWGAPALFVKKKDGSFQMCIDY</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="8" PGL_strand="-" PGL_start="57612" PGL_stop="56899"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="57612" e_stop="56899"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.920"/>
        </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="0.920">
            <gDNA_exon_boundary e_start="57612" e_stop="56899" e_length="714"/>
          </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="57612" stop="56899"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E392027" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="8" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>CAGCAAACGTGCCGTCGTCTTCAACTCAACAGTAATTCAAGTTAGTCTTTACTACACCGGAAATTTAGGGTGAGCTAATGATTCTAGCTTGGAGTGGATCTTCTTCTTCAAGTCTTGATGCCCTGAACTTCCGGCATGGACTAGCTTTTACTAGTTTTAGCTTTTAGAATACTCTTAGTTTAGTAATTGATCATAGATGTTCTTGTGATGATGACTTCCAGATTTTGGGGAATAATAGATGTTGAGTTTTAGAAGTTAATGAATTGGTTTTATTTAATGAGTTTGAGTCTTCCGCATTATTTGCTGTTGATATTATATTGAAATGTTAGAGTTTAGATTGGTTGGTTCGCTCACATAGGAGGGTAAGTGTGGGTGCCAGTCACGGTCCGGATTTGGGTCGTGACAAACTTGGTATCAGAGCATTAGGTGCGTTGGTCTCATCACACAAGAACGAGTCTAGTAGAGTCTTAAGGAACGGTAGGGGGACGCCTTTACTTTTCTTTGAGAGGCTATAAGACCTTAGGAAAATTCCATTCTTTCATTCTTTCTTTCGTGCTACTACTTGAATCCAATTGGTATCTAGGTGATACAAATTGGTATCTGACCATCTTCACTCTCTTTCGCAGATGGTTAGAACTAGAGCAACGACTACGCCAACATCAACACCAGCACCGGCAGGACAGGGTGCGTCTGAGCCAACCACTGGGGCTGTAG</gDNA_template>
            <first_frame> Q  Q  T  C  R  R  L  Q  L  N  S  N  S  S  *  S  L  L  H  R  K  F  R  V  S  *  *  F  *  L  G  V  D  L  L  L  Q  V  L  M  P  *  T  S  G  M  D  *  L  L  L  V  L  A  F  R  I  L  L  V  *  *  L  I  I  D  V  L  V  M  M  T  S  R  F  W  G  I  I  D  V  E  F  *  K  L  M  N  W  F  Y  L  M  S  L  S  L  P  H  Y  L  L  L  I  L  Y  *  N  V  R  V  *  I  G  W  F  A  H  I  G  G  *  V  W  V  P  V  T  V  R  I  W  V  V  T  N  L  V  S  E  H  *  V  R  W  S  H  H  T  R  T  S  L  V  E  S  *  G  T  V  G  G  R  L  Y  F  S  L  R  G  Y  K  T  L  G  K  F  H  S  F  I  L  S  F  V  L  L  L  E  S  N  W  Y  L  G  D  T  N  W  Y  L  T  I  F  T  L  F  R  R  W  L  E  L  E  Q  R  L  R  Q  H  Q  H  Q  H  R  Q  D  R  V  R  L  S  Q  P  L  G  L  * </first_frame>
            <second_frame>  S  K  R  A  V  V  F  N  S  T  V  I  Q  V  S  L  Y  Y  T  G  N  L  G  *  A  N  D  S  S  L  E  W  I  F  F  F  K  S  *  C  P  E  L  P  A  W  T  S  F  Y  *  F  *  L  L  E  Y  S  *  F  S  N  *  S  *  M  F  L  *  *  *  L  P  D  F  G  E  *  *  M  L  S  F  R  S  *  *  I  G  F  I  *  *  V  *  V  F  R  I  I  C  C  *  Y  Y  I  E  M  L  E  F  R  L  V  G  S  L  T  *  E  G  K  C  G  C  Q  S  R  S  G  F  G  S  *  Q  T  W  Y  Q  S  I  R  C  V  G  L  I  T  Q  E  R  V  *  *  S  L  K  E  R  *  G  D  A  F  T  F  L  *  E  A  I  R  P  *  E  N  S  I  L  S  F  F  L  S  C  Y  Y  L  N  P  I  G  I  *  V  I  Q  I  G  I  *  P  S  S  L  S  F  A  D  G  *  N  *  S  N  D  Y  A  N  I  N  T  S  T  G  R  T  G  C  V  *  A  N  H  W  G  C   </second_frame>
            <third_frame>   A  N  V  P  S  S  S  T  Q  Q  *  F  K  L  V  F  T  T  P  E  I  *  G  E  L  M  I  L  A  W  S  G  S  S  S  S  S  L  D  A  L  N  F  R  H  G  L  A  F  T  S  F  S  F  *  N  T  L  S  L  V  I  D  H  R  C  S  C  D  D  D  F  Q  I  L  G  N  N  R  C  *  V  L  E  V  N  E  L  V  L  F  N  E  F  E  S  S  A  L  F  A  V  D  I  I  L  K  C  *  S  L  D  W  L  V  R  S  H  R  R  V  S  V  G  A  S  H  G  P  D  L  G  R  D  K  L  G  I  R  A  L  G  A  L  V  S  S  H  K  N  E  S  S  R  V  L  R  N  G  R  G  T  P  L  L  F  F  E  R  L  *  D  L  R  K  I  P  F  F  H  S  F  F  R  A  T  T  *  I  Q  L  V  S  R  *  Y  K  L  V  S  D  H  L  H  S  L  S  Q  M  V  R  T  R  A  T  T  T  P  T  S  T  P  A  P  A  G  Q  G  A  S  E  P  T  T  G  A  V  </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04SLm0030O16.1" strand="-"/>
                <serials PGL_serial="8" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="57141" stop="56899"/>
                  </exon_boundaries>
                  <frame>0</frame>
                  <number_coding_nucleotides>240</number_coding_nucleotides>
                  <number_encoded_amino_acids>80</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>GTVGGRLYFSLRGYKTLGKFHSFILSFVLLLESNWYLGDTNWYLTIFTLFRRWLELEQRLRQHQHQHRQDRVRLSQPLGL*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="9" PGL_strand="-" PGL_start="57853" PGL_stop="57618"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="57853" e_stop="57618"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.932"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="0.932">
            <gDNA_exon_boundary e_start="57853" e_stop="57618" e_length="236"/>
          </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="57853" stop="57618"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E209683" strand="+"/>
          </PGS_line>
        </supporting_evidence>
        <three_phase_translation xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/">
          <description PGL_serial="9" AGS_serial="1" gDNA_strand="-"/>
          <translation>
            <gDNA_template>TAATGAACCTAATTCCCAAATGAGTATGATGAGGAGGTGTGAGTCCTCATTGATGTGCTTGGTGTTGTAACCAAGGGTTATGGTAACTGTAAATGCTGCATGCTAAGGATATTAATTGATTTTATGATATTGCTTAATATATATTGTTTTCTATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGTGTTTGTACTGACCCCCTACATTTATGTTTTCTTCTTTGTTATTTGTG</gDNA_template>
            <first_frame> *  *  T  *  F  P  N  E  Y  D  E  E  V  *  V  L  I  D  V  L  G  V  V  T  K  G  Y  G  N  C  K  C  C  M  L  R  I  L  I  D  F  M  I  L  L  N  I  Y  C  F  L  F  *  V  G  R  *  Y  L  L  S  T  R  V  C  T  D  P  L  H  L  C  F  L  L  C  Y  L   </first_frame>
            <second_frame>  N  E  P  N  S  Q  M  S  M  M  R  R  C  E  S  S  L  M  C  L  V  L  *  P  R  V  M  V  T  V  N  A  A  C  *  G  Y  *  L  I  L  *  Y  C  L  I  Y  I  V  F  Y  F  E  L  A  D  D  I  Y  S  V  P  V  F  V  L  T  P  Y  I  Y  V  F  F  F  V  I  C  </second_frame>
            <third_frame>   M  N  L  I  P  K  *  V  *  *  G  G  V  S  P  H  *  C  A  W  C  C  N  Q  G  L  W  *  L  *  M  L  H  A  K  D  I  N  *  F  Y  D  I  A  *  Y  I  L  F  S  I  L  S  W  P  M  I  S  T  Q  Y  P  C  L  Y  *  P  P  T  F  M  F  S  S  L  L  F  V </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04SLm0030O16.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 124 chains have been computed
$ 
$ memory statistics:
$ 88168 bytes spliced alignments in total
$ 15 spliced alignments have been stored
$ 5877 bytes was the average size of a spliced alignment
$ 15000 bytes predicted gene locations in total
$ 9 predicted gene locations have been stored
$ 1666 bytes was the average size of a predicted gene location
$ 1 megabytes was the average size of the backtrace matrix
$ 140 backtrace matrices have been allocated
$ 
$ date finished: 2009-02-20 08:32:34
-->
