<?xml version="1.0" encoding="ISO-8859-1"?>
<GTH_output xmlns="http://www.genomethreader.org/GTH_output/" GTH_XML_version="1.1">
  <header xmlns="http://www.genomethreader.org/GTH_output/header/">
    <source program="GenomeThreader" version="0.9.54" build_date="2006-07-28 11:55:15" run_date="2009-01-15 05:22:10"/>
    <gDNA_template_files>
      <temp_name>/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs</temp_name>
    </gDNA_template_files>
    <reference_files>
      <file ref_name="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" type="ESTcDNA"/>
    </reference_files>
    <splice_site_parameters parameter_type="Bayesian" species="arabidopsis"/>
    <parameters>
      <parameter name="bssmfile" value="arabidopsis"/>
      <parameter name="scorematrixfile" value="BLOSUM62"/>
      <parameter name="searchmode" value="forward=True,reverse=True)"/>
      <parameter name="translationtable" value="1"/>
      <parameter name="frompos" value="0"/>
      <parameter name="topos" value="0"/>
      <parameter name="width" value="0"/>
      <parameter name="verbose" value="False"/>
      <parameter name="skipalignmentout" value="False"/>
      <parameter name="showintronmaxlen" value="120"/>
      <parameter name="minorflen" value="64"/>
      <parameter name="showseqnums" value="False"/>
      <parameter name="gs2out" value="False"/>
      <parameter name="maskpolyatails" value="False"/>
      <parameter name="noautoindex" value="False"/>
      <parameter name="minmatchlen" value="20"/>
      <parameter name="seedlength" value="16"/>
      <parameter name="exdrop" value="2"/>
      <parameter name="online" value="False"/>
      <parameter name="inverse" value="False"/>
      <parameter name="exact" value="False"/>
      <parameter name="chainwf" value="0.500000"/>
      <parameter name="gcmaxgapwidth" value="1000000"/>
      <parameter name="gcmincoverage" value="50"/>
      <parameter name="introncutout" value="False"/>
      <parameter name="autointroncutout" value="0"/>
      <parameter name="icinitialdelta" value="50"/>
      <parameter name="iciterations" value="2"/>
      <parameter name="icdeltaincrease" value="50"/>
      <parameter name="icminremintronlen" value="10"/>
      <parameter name="nou12intronmodel" value="False"/>
      <parameter name="u12donorprob" value="0.990000"/>
      <parameter name="u12donorprob1mism" value="0.900000"/>
      <parameter name="probies" value="0.500000"/>
      <parameter name="probdelgen" value="0.030000"/>
      <parameter name="identityweight" value="2.000000"/>
      <parameter name="mismatchweight" value="-2.000000"/>
      <parameter name="undetcharweight" value="0.000000"/>
      <parameter name="deletionweight" value="-4.000000"/>
      <parameter name="dpminexonlen" value="5"/>
      <parameter name="dpminintronlen" value="50"/>
      <parameter name="shortexonpenal" value="100"/>
      <parameter name="shortintronpenal" value="100"/>
      <parameter name="wzerotransition" value="80"/>
      <parameter name="wdecreasedoutput" value="80"/>
      <parameter name="leadcutoffsmode" value="RELAXED"/>
      <parameter name="termcutoffsmode" value="STRICT"/>
      <parameter name="cutoffsminexonlen" value="5"/>
      <parameter name="scoreminexonlen" value="50"/>
      <parameter name="minaveragessp" value="0.500000"/>
      <parameter name="minalignmentscore" value="0.900000"/>
      <parameter name="maxalignmentscore" value="1.000000"/>
      <parameter name="mincoverage" value="0.900000"/>
      <parameter name="maxcoverage" value="100.000000"/>
      <parameter name="intermediate" value="False"/>
      <parameter name="sortags" value="False"/>
      <parameter name="sortagswf" value="1.000000"/>
      <parameter name="first" value="0"/>
      <parameter name="exondistri" value="False"/>
      <parameter name="introndistri" value="False"/>
      <parameter name="refseqcovdistri" value="False"/>
    </parameters>
    <overall_reference_type>ESTcDNA</overall_reference_type>
  </header>
  <alignment_module>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E326799" ref_strand="+" ref_description="SGN-E326799 [cTOC-25-M24]">
      <seq>tgaacatgggcgttgctaatgttccagagctcgaaggcctatcaggtaaagttatggatggtttagcaacttctatgaaggacaaacatttggagttagatcctaaagataatgagaatatgggtagaaacctaaagctgaacaaggaaacacgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtactgccaatgaagttccaaatgatccttccaagatcacaaacatcaaagaaattgccacctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgtgcaagagcgaaatatactcaagcattcagatctgtcagcgttctctacgtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccagtagacaaacctgcagtcaatgcccattcctgttctgcatttcaaccagtgcaacatggacatacttcttctcgtgcagcaatggttccaggaaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1236" stop="2652"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1536" g_stop="1950" g_length="415"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="415" r_length="415" r_score="0.993"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2352" g_length="322"/>
          <reference_exon_boundary r_type="cDNA" r_start="416" r_stop="737" r_length="322" r_score="0.984"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E326799" ref_strand="+">
        <total_alignment_score>0.989</total_alignment_score>
        <cumulative_length_of_scored_exons>737</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E326799" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1536" e_stop="1950"/>
          <exon e_start="2031" e_stop="2352"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAACATGGGCGTTGCTAATGTTCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACA</genome_strand>
        <mrna_strand>TGAACATGGGCGTTGCTAATGTTCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAACTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAAGCATTCAGATCTGTCAGCGTTCTCTAC................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAGTAGACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCGTGCAGCAATGGTTCCAGGAACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E258370" ref_strand="+" ref_description="SGN-E258370 [cLEG-49-P24]">
      <seq>tccagagctcgaaggcctatcaggtaaagttatggatggtttagcagcttctatgaaggacaaacatttggagttagatcctaaagataatgagaatatgggtagaaacctaaagctgaacaaggaaacacgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtactgccaatgaagttccaaatgatccttccaagatcacaaacatcaaagaaattgccacctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgtgcaagagcgaaatatactcaggcattcagatctgtcagcgttctctaggtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccaataaacaaacctgcagtcaatgcccattcctgttctgcatttncaccagtgcaacatggacatacttcttctc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1258" stop="2629"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1558" g_stop="1950" g_length="393"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="393" r_length="393" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2329" g_length="299"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="692" r_length="299" r_score="0.993"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E258370" ref_strand="+">
        <total_alignment_score>0.997</total_alignment_score>
        <cumulative_length_of_scored_exons>692</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E258370" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1558" e_stop="1950"/>
          <exon e_start="2031" e_stop="2329"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTC</genome_strand>
        <mrna_strand>TCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTNCACCAGTGCAACATGGACATACTTCTTCTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E262128" ref_strand="+" ref_description="SGN-E262128 [cLEG-58-O10]">
      <seq>tccagagctcgaaggcctatcaggtaaagttatggatggtttagcagcttctatgaaggacaaacatttggagttagatcctaaagataatgagaatatgggtagaaacctaaagctgaacaaggaaacacgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtactgccaatgaagttccaaatgatccttccaagatcacaaacatcaaagaaattgccacctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgtgcaagagcgaaatatactcaggcattcagatctgtcagcgttctctaggtataatgctgcttcaactgctaatcaggctccaactgggaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatgggagtagntacaacaatgacatgggctcgtcgacaataatttcttcatcaaacagacacattaattgacaaaccataaacaaacctgcagtcatgcccattcctggtctgcattttcacagtgcaacatggacatacttctt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1258" stop="2626"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1558" g_stop="1950" g_length="393"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="393" r_length="393" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="1.00"/>
            <acceptor a_prob="0.994" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2326" g_length="296"/>
          <reference_exon_boundary r_type="cDNA" r_start="394" r_stop="684" r_length="291" r_score="0.959"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E262128" ref_strand="+">
        <total_alignment_score>0.983</total_alignment_score>
        <cumulative_length_of_scored_exons>689</cumulative_length_of_scored_exons>
        <coverage percentage="1.007" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E262128" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1558" e_stop="1950"/>
          <exon e_start="2031" e_stop="2326"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTT</genome_strand>
        <mrna_strand>TCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGGAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGGAGTAGNTACAACAATGACATGGGCTCGTCGAC-AATAATTTCTTCATCAAA-CAGACACATTAATTGACAAACC-ATAAACAAACCTGCAGTC-ATGCCCATTCCTGGTCTGCATTTTCA-CAGTGCAACATGGACATACTTCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E402577" ref_strand="+" ref_description="SGN-E402577 [PPC-8-I17]">
      <seq>ttaaggacaaacatttggagttagatcctaaggataatgagaatatgggtagaaacctaaagctgaacaaggaaactcgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtatggccaatgaagttcctaatgatcctttcaagatcacaaacataaaagaaattgccacctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgttcaagagcgaaatatactcaggcattcagatctgtcagcattctctaggtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataattgttcagaagttgcaaaagcagaatcaattcataacttgcgatcgaagtcaaacagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcctcgacaaataatttcttcagcaaaccagacacattaactgacaagccaataaacaaacctgcagtcaatgcccatccctgttctgcatttcaaccagtgcaacatggacataattcttctcttcaagctatggttccaggaacacaagattctgcaaaggcagccgtgagccaagcaagagcgatgcaccagaaagttcaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttaacttgca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1311" stop="2765"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1611" g_stop="1950" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="340" r_length="340" r_score="0.971"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2465" g_length="435"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="775" r_length="435" r_score="0.954"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E402577" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>775</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E402577" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1611" e_stop="1950"/>
          <exon e_start="2031" e_stop="2465"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCA</genome_strand>
        <mrna_strand>TTAAGGACAAACATTTGGAGTTAGATCCTAAGGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACTCGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTATGGCCAATGAAGTTCCTAATGATCCTTTCAAGATCACAAACATAAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTTCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCATTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATTGTTCAGAAGTTGCAAAAGCAGAATCAATTCATAACTTGCGATCGAAGTCAAACAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCCTCGACAAATAATTTCTTCAGCAAACCAGACACATTAACTGACAAGCCAATAAACAAACCTGCAGTCAATGCCCATCCCTGTTCTGCATTTCAACCAGTGCAACATGGACATAATTCTTCTCTTCAAGCTATGGTTCCAGGAACACAAGATTCTGCAAAGGCAGCCGTGAGCCAAGCAAGAGCGATGCACCAGAAAGTTCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAACTTGCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E432951" ref_strand="+" ref_description="SGN-E432951 [STM-57-F8]">
      <seq>ttatggacaaacatttggagttagatcctaaggataatgagaatatgggtagaaacctaaagctgaacaaggaaactcgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtatggccaatgaagttcctaatgatcctttcaagatcacaaacataaaagaaattgccacctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgttcaagagcgaaatatactcaggcattcagatctgtcagcattctctaggtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataattgttcagaagttgcaaaagcagaatcaattcataacttgcgatcgaagtcaaacagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcctcgacaaataatttcttcagcaaaccagacacattaactgacaagccaataaacaaacctgcagtcaatgcccatccctgttctgcatttcaaccagtgcaacatggacataattcttc</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1311" stop="2627"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1611" g_stop="1950" g_length="340"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="340" r_length="340" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2327" g_length="297"/>
          <reference_exon_boundary r_type="cDNA" r_start="341" r_stop="637" r_length="297" r_score="0.960"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E432951" ref_strand="+">
        <total_alignment_score>0.964</total_alignment_score>
        <cumulative_length_of_scored_exons>637</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E432951" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1611" e_stop="1950"/>
          <exon e_start="2031" e_stop="2327"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTC</genome_strand>
        <mrna_strand>TTATGGACAAACATTTGGAGTTAGATCCTAAGGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACTCGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTATGGCCAATGAAGTTCCTAATGATCCTTTCAAGATCACAAACATAAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTTCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCATTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATTGTTCAGAAGTTGCAAAAGCAGAATCAATTCATAACTTGCGATCGAAGTCAAACAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCCTCGACAAATAATTTCTTCAGCAAACCAGACACATTAACTGACAAGCCAATAAACAAACCTGCAGTCAATGCCCATCCCTGTTCTGCATTTCAACCAGTGCAACATGGACATAATTCTTC</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E455434" ref_strand="+" ref_description="SGN-E455434 [cSTS-26-C24]">
      <seq>ctaaagctgaacaaggaaactcgggaagatgacctgaaggacaaggatgttggttatatgggtgacataaccaacacatgtacgcctcaagtagaaagtatggccaatgaagttcctaatgatcctttcaagatcacaaacataaaagaaattgccatctatgacagtaaagacatgccttcacttgaacttagtttgaagcaacttcgagatgttggagagaatgggactggtgttcaagagcgaaatatactcaggcattcagatctgtcagcattctctaggtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataattgttcagaagttgcaaaagcagaatcaattcataccttgcgatcgaagtcaaacagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcctcgacaaataatttcttcagcaaaccagacacattaactgacaagccaataaacaaacctgcagtcaatgcccatccctgttctgcatttcaaccagtgcaacatggacgtaattcttctcttcaagctatggttccaggaacacaagatactgcaaaggcagccgtgagccaagcaagagcgatgccccagaagttccaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttaacttgcagcagcgaccacagctgctta</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1367" stop="2785"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1667" g_stop="1950" g_length="284"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="284" r_length="284" r_score="0.968"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="0.96"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2485" g_length="455"/>
          <reference_exon_boundary r_type="cDNA" r_start="285" r_stop="739" r_length="455" r_score="0.956"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E455434" ref_strand="+">
        <total_alignment_score>0.961</total_alignment_score>
        <cumulative_length_of_scored_exons>739</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E455434" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1667" e_stop="1950"/>
          <exon e_start="2031" e_stop="2485"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTA</genome_strand>
        <mrna_strand>CTAAAGCTGAACAAGGAAACTCGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTATGGCCAATGAAGTTCCTAATGATCCTTTCAAGATCACAAACATAAAAGAAATTGCCATCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTTCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCATTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATTGTTCAGAAGTTGCAAAAGCAGAATCAATTCATACCTTGCGATCGAAGTCAAACAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCCTCGACAAATAATTTCTTCAGCAAACCAGACACATTAACTGACAAGCCAATAAACAAACCTGCAGTCAATGCCCATCCCTGTTCTGCATTTCAACCAGTGCAACATGGACGTAATTCTTCTCTTCAAGCTATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGAGCCAAGCAAGAGCGATGCCCCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAACTTGCAGCAGCGACCACAGCTGCTTA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E328236" ref_strand="+" ref_description="SGN-E328236 [cTOC-21-D7]">
      <seq>ttctctaggtataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccaataaacaaacctgcagtcaatgcccattcctgttctgcatttcaaccagtgcaacatggacatacttcttctcttcaagcaatggttccaggaacacaagatactgcaaaggcagccgtgggccaagcaagagcaatgcaccagaagttccaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttagcttgcagcagcgacaacagctgcttaatgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtagttgctgaaggaaccatttggntgctggaaatgaaactggtgaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1729" stop="3010"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="1943" g_stop="1950" g_length="8"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="8" r_length="8" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80">
            <donor d_prob="0.997" d_score="0.00"/>
            <acceptor a_prob="0.994" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="2031" g_stop="2710" g_length="680"/>
          <reference_exon_boundary r_type="cDNA" r_start="9" r_stop="686" r_length="678" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E328236" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>688</cumulative_length_of_scored_exons>
        <coverage percentage="1.003" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E328236" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="1943" e_stop="1950"/>
          <exon e_start="2031" e_stop="2710"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTCTCTAGGCATGTGATTCATCTGTCACTAAAACTCAACAACCTGACCAAAGAAGCTTCAGTTGCTAATTGATTGTCATCACATGCAGGTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAA</genome_strand>
        <mrna_strand>TTCTCTAG................................................................................GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGG-AGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACC-ATTTGGNTGCTGGAAATGAAACTGGTGAAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E207633" ref_strand="+" ref_description="SGN-E207633 [cLEC-32-O16]">
      <seq>ataatgctgcttcaactgctaatcaggctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccaataaacaaacctgcagtcaatgcccattcctgttctgcatttcaaccagtgcaacatggacatacttcttctcttcaagcaatggttgcaggaacacaagatactgcaaaggcagccgtgggccaagcaagagcaatgcaccagaagttccaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttagcttgcagcagcgacaacagctgcttaatgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1733" stop="2850"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2033" g_stop="2550" g_length="518"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="518" r_length="518" r_score="0.998"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E207633" ref_strand="+">
        <total_alignment_score>0.998</total_alignment_score>
        <cumulative_length_of_scored_exons>518</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E207633" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2033" e_stop="2550"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>ATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATG</genome_strand>
        <mrna_strand>ATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTGCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E260325" ref_strand="+" ref_description="SGN-E260325 [cLEG-53-K2]">
      <seq>caggctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccaataaacaaacctgcagtcaatgcccattcctgttctgcatttcaaccagtgcaacatggacatacttcttctcttcaagcaatggttccaggaacacaagatactgcaaaggcagccgtgggccaagcaagagcaatgcaccagaagttccaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttagcttgcagcagcgacaacagctgcttaatgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1756" stop="2890"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2056" g_stop="2590" g_length="535"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="535" r_length="535" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E260325" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>535</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E260325" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2056" e_stop="2590"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAA</genome_strand>
        <mrna_strand>CAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E261153" ref_strand="+" ref_description="SGN-E261153 [cLEG-65-J10]">
      <seq>gctccaactggaaacgtgggcagctgttcaccagttaataatagttcagaagttgcaaaagcagaatcaattcacaacttgcaatccaagtcgagcagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcgtcgacaaataatttcttcatcaaaccagacacattaattgacaaaccaataaacaaacctgcagtcaatgcccattcctgttct</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1759" stop="2592"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2059" g_stop="2292" g_length="234"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="234" r_length="234" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E261153" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>234</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E261153" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2059" e_stop="2292"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCT</genome_strand>
        <mrna_strand>GCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E486697" ref_strand="+" ref_description="SGN-E486697 [cSTE-23-A1]">
      <seq>aacgtgggcagctgttcaccagttaataattgttcagaagttgcaaaagcagaatcaattcataacttgcgatcgaagtcaaacagtacccctaatcagcgctcaaatggaagtagtaacaacaatgacatgggctcctcgacaaataatttcttcagcaaaccagacacattaactgacaagccaataaacaaacctgcagtcaatgcccatccctgttctgcatttcaaccagtgcaacatggacataattcttctcttcaagctatggttccaggaacacaagattctgcaaaggcagccgtgagccaagcaagagcgatgcaccagaagttccaagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttaacttgcagcagcgacaacagctgcttaacaatgatgattcgtctttgcgaaatgctgttgaagctgctccagattgcggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaaagtacaatggaaagcatgggcaaaatggaagcagtggcccaaatgggagtagcactgctgtagttgctgaaggaacaaat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="1771" stop="2982"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2071" g_stop="2682" g_length="612"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="612" r_length="612" r_score="0.946"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E486697" ref_strand="+">
        <total_alignment_score>0.946</total_alignment_score>
        <cumulative_length_of_scored_exons>612</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E486697" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2071" e_stop="2682"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAAT</genome_strand>
        <mrna_strand>AACGTGGGCAGCTGTTCACCAGTTAATAATTGTTCAGAAGTTGCAAAAGCAGAATCAATTCATAACTTGCGATCGAAGTCAAACAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCCTCGACAAATAATTTCTTCAGCAAACCAGACACATTAACTGACAAGCCAATAAACAAACCTGCAGTCAATGCCCATCCCTGTTCTGCATTTCAACCAGTGCAACATGGACATAATTCTTCTCTTCAAGCTATGGTTCCAGGAACACAAGATTCTGCAAAGGCAGCCGTGAGCCAAGCAAGAGCGATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAACTTGCAGCAGCGACAACAGCTGCTTAACAATGATGATTCGTCTTTGCGAAATGCTGTTGAAGCTGCTCCAGATTGCGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAAGTACAATGGAAAGCATGGGCAAAATGGAAGCAGTGGCCCAAATGGGAGTAGCACTGCTGTAGTTGCTGAAGGAACAAAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E365268" ref_strand="+" ref_description="SGN-E365268 [cLPT-16-K7]">
      <seq>caagttcagcaccaccatcatcactaccatcaccatcaccaccatgtgcttagcttgcaacagcgacaacagctgcttaacgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggaagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtagttgctgaaggaaccaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggaagt</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2107" stop="3027"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2407" g_stop="2727" g_length="321"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="321" r_length="321" r_score="0.994"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E365268" ref_strand="+">
        <total_alignment_score>0.994</total_alignment_score>
        <cumulative_length_of_scored_exons>321</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E365268" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2407" e_stop="2727"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGT</genome_strand>
        <mrna_strand>CAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAACAGCGACAACAGCTGCTTAACGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E365269" ref_strand="+" ref_description="SGN-E365269 [cLPT-16-K9]">
      <seq>agttcagcaccaccatcatcgctaccatcaccatcaccaccatgtgcttagcttgcaacagcgacaacagctgcttaacgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggaagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtagttgctgaaggaaccaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggaagtgggagtggaagtgcaactagaagtggtgatcactcggctcaaagagaggctgctctgattaaattccggcaaaagaagaaggagagatgctttgagaag</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2109" stop="3126"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2409" g_stop="2826" g_length="418"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="418" r_length="418" r_score="0.988"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E365269" ref_strand="+">
        <total_alignment_score>0.988</total_alignment_score>
        <cumulative_length_of_scored_exons>418</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E365269" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2409" e_stop="2826"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAG</genome_strand>
        <mrna_strand>AGTTCAGCACCACCATCATCGCTACCATCACCATCACCACCATGTGCTTAGCTTGCAACAGCGACAACAGCTGCTTAACGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAAAGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAAGAAGGAGAGATGCTTTGAGAAG</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E318548" ref_strand="+" ref_description="SGN-E318548 [cTOB-10-L10]">
      <seq>caccatgtgcttagcttgcagcagcgacaacagctgcttaatgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggaagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtagttgctgaaggaaccaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggaagtgggagtggaagtgcaactagaagtggtgatcactcggctcaacgagaggctgctctgattaaattccggcaaaagaggaaggagagatgctttgagaagaaggtccggtaccagagtagaaagagacttgcagaacaaaggccacgcatgcgagggcaatttgtgcgtcaagatgcagacaaaagtaaaagcaacaatacaaattcctgacccctaccgtttgaattggatggttgatgtcaaatgagttca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2146" stop="4596"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2446" g_stop="2829" g_length="384"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="384" r_length="384" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2830" i_stop="4146" i_length="1317">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4147" g_stop="4296" g_length="150"/>
          <reference_exon_boundary r_type="cDNA" r_start="385" r_stop="534" r_length="150" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E318548" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>534</cumulative_length_of_scored_exons>
        <coverage percentage="1.000" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E318548" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2446" e_stop="2829"/>
          <exon e_start="4147" e_stop="4296"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAGGTAATTGTTATGGTTGCAATATTGTTGAAATTTATTTTAGTTGCTGCAGTAGATTTTACAATAATAAGTTGCTTAGGTTTAGGATGGATTTGAAATTGGACTTTTTATTAGGTTGTGTTAGTTGTTGAGTTATTTTAGCTCTTTTGAATTGCAGCTTTTCTGCATATTATTTGATCAAATTGGCTATTTAAAGCCTTCTTATGCTTAATGAAAAATTTGAGAGACATTTTTCAACTCTTTTTTGCTGCACTATCTTTTAAGAAAAAACCTACAGTGGTATTAAGAGCCTCATTGATCTTACGGGATCTGTGAGTTCTTCTAGAGAAACATTTTCAACCTGCCAAGGCTACTTTCAACCTATTTTAACCCATCACGCAAGGCTATTTTCAACCAATTTATAACTAATATCAATTTTTAAAGCAATTTTCAACTATGGTAAGTAGTCTCTCTTTCAATGCCCCCACAAACTTTCACCAATGAAAACTATCAAATTTGGTCGGTGAGAATGAAACCATATTTTGACACCTTGTTTTATGGGTTGTTGTGATGGAAGAAAGATCCTTGCAAACAACTTCTACCAAATCCTATCATTGTCCAGAACAAAAACACTTTCAAAAGAGCTTCCAAACTACAAAATTTTCGAGGGTGGTTTTTAGGCAGAAACCCAACAGAAAAAAAAGAGAGAGAGAGATGAAATTTCTTTCCAATTTCAAAAACAGTGAGCAACAATTACCAAATTAAAATTTGAGGAGAATTTTTTAAATTGTAGTAACGAAAGCAAGGGAGGAGTGTTGAAATTTACTTTAGCTACTCCAGTAATTTTAGTTTATGTTTAGGATGAATTTGAAATTTGAACTTTGAACTTTTTTAGGTTGTTTTAGTTGTTGAATTTGAAATTTGATATTTTAACTGTCTTGAACTTTCAAGTACACATTATGTGCTCACATTGACTAGTTAAATCCCTCTTATGCTTAATAACAACATAGAGACTGAGACATTTACGACGCTTTTCTGCTGCACCATAATTCTGTAGTTTGTTGAAATACCACTTGAACCTTCTTTTTAAGCCGTTCAGCATACCAATCCCTTGTCTTTTTGTTTTTCATTTTTACTATAGTATAGTTTTGCATACAATAACTTGCACATGAAGTCAATGATGCAACTTTGTCTGCTACATCTCATCAGCAAGATTTAAAGTTCTTTGCGGTTCAAATTTTAATTCACAAAATTTAGCTTTTGTTGGGTTTAAAGCTATGGAACAGTCAATTGTTGGCAGAGAAGCAAAACTTGTCTGAATTTTCTTCCCATGTATTTTAGGTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCA</genome_strand>
        <mrna_strand>CACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E372223" ref_strand="+" ref_description="SGN-E372223 [TUS-30-D19](-)">
      <seq>gcttgcagcagcgacaacagctgcttaatgctgatgcttcgtctttgcgaaatgctgttgaaactgctcccgattgtggaacatctgacatggtaggtactcctgttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggaagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtagttgctgaaggaaccaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggaagtgggagtggaagtgcaactagaagtggtgatcactcggctcaacgagaggctgctctgattaaattccggcaaaagaggaaggagagatgctttgagaagaaggtccggtaccagagtagaaagagacttgcagaacaaaggccacgcatgcgagggcaatttgtgcgtcaagatgcagacaaaagtaaaagcaacaatacaaattcctgacccctaccgtttgaattggatggttgatgtcaaatgagttcaagaagctttaactttgatcgcctaggtagggaggaagcagttcggtaaaacagctaaatttatttagttgaagcattggtgtctagtaataattacttattggagatgttattaattggggagtcctatgaagacgtctttgttatatagtcagtttgaagatacttattttgcacttctagatgttgggaataccctaataaaattcttcagtatgttgtgcttaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2159" stop="4821"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2459" g_stop="2829" g_length="371"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="371" r_length="371" r_score="1.000"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2830" i_stop="4146" i_length="1317">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4147" g_stop="4521" g_length="375"/>
          <reference_exon_boundary r_type="cDNA" r_start="372" r_stop="746" r_length="375" r_score="1.000"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="747" polyA_stop="756"/>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E372223" ref_strand="+">
        <total_alignment_score>1.000</total_alignment_score>
        <cumulative_length_of_scored_exons>746</cumulative_length_of_scored_exons>
        <coverage percentage="0.987" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E372223" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2459" e_stop="2829"/>
          <exon e_start="4147" e_stop="4521"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>GCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAGGTAATTGTTATGGTTGCAATATTGTTGAAATTTATTTTAGTTGCTGCAGTAGATTTTACAATAATAAGTTGCTTAGGTTTAGGATGGATTTGAAATTGGACTTTTTATTAGGTTGTGTTAGTTGTTGAGTTATTTTAGCTCTTTTGAATTGCAGCTTTTCTGCATATTATTTGATCAAATTGGCTATTTAAAGCCTTCTTATGCTTAATGAAAAATTTGAGAGACATTTTTCAACTCTTTTTTGCTGCACTATCTTTTAAGAAAAAACCTACAGTGGTATTAAGAGCCTCATTGATCTTACGGGATCTGTGAGTTCTTCTAGAGAAACATTTTCAACCTGCCAAGGCTACTTTCAACCTATTTTAACCCATCACGCAAGGCTATTTTCAACCAATTTATAACTAATATCAATTTTTAAAGCAATTTTCAACTATGGTAAGTAGTCTCTCTTTCAATGCCCCCACAAACTTTCACCAATGAAAACTATCAAATTTGGTCGGTGAGAATGAAACCATATTTTGACACCTTGTTTTATGGGTTGTTGTGATGGAAGAAAGATCCTTGCAAACAACTTCTACCAAATCCTATCATTGTCCAGAACAAAAACACTTTCAAAAGAGCTTCCAAACTACAAAATTTTCGAGGGTGGTTTTTAGGCAGAAACCCAACAGAAAAAAAAGAGAGAGAGAGATGAAATTTCTTTCCAATTTCAAAAACAGTGAGCAACAATTACCAAATTAAAATTTGAGGAGAATTTTTTAAATTGTAGTAACGAAAGCAAGGGAGGAGTGTTGAAATTTACTTTAGCTACTCCAGTAATTTTAGTTTATGTTTAGGATGAATTTGAAATTTGAACTTTGAACTTTTTTAGGTTGTTTTAGTTGTTGAATTTGAAATTTGATATTTTAACTGTCTTGAACTTTCAAGTACACATTATGTGCTCACATTGACTAGTTAAATCCCTCTTATGCTTAATAACAACATAGAGACTGAGACATTTACGACGCTTTTCTGCTGCACCATAATTCTGTAGTTTGTTGAAATACCACTTGAACCTTCTTTTTAAGCCGTTCAGCATACCAATCCCTTGTCTTTTTGTTTTTCATTTTTACTATAGTATAGTTTTGCATACAATAACTTGCACATGAAGTCAATGATGCAACTTTGTCTGCTACATCTCATCAGCAAGATTTAAAGTTCTTTGCGGTTCAAATTTTAATTCACAAAATTTAGCTTTTGTTGGGTTTAAAGCTATGGAACAGTCAATTGTTGGCAGAGAAGCAAAACTTGTCTGAATTTTCTTCCCATGTATTTTAGGTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAGTCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTAATAAAATTCTTCAGTATGTTGTGCTT</genome_strand>
        <mrna_strand>GCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAGTCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTAATAAAATTCTTCAGTATGTTGTGCTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E299242" ref_strand="+" ref_description="SGN-E299242 [cLET-43-A18]">
      <seq>ttgaaggaaatgctgctaattatggaagtgcatcaggaagtaacaatggaagcaatgggcaaaatggaagcagtggccaaaatgggagcagcactgctgtacttgctgaaggaaccaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggaagtgggagtggaagtgcaactagaagtggtgatcactcggctcaacgagaggctgctctgattaaattccggcaaaagaggaaggagagatgctttgagaagaaggtccggtaccagagtagaaagagacttgcagaacaaaggccacgcatgcgagggcaatttgtgcgtcaagatgcagacaaaagtaaaagcaacaatacaaattcctgacccctaccgtttgaattggatggttgatgtcaaatgagttcaagaagctttaactttgatcgcctaggtagggaggaagcacttctgtaaaacagctaaatttatttagttgaagcattggtgtctagtaataattacttattggagatgttattaattggggagtcctatgaagacgtctttgttatataatcagtttgaagatacttattttgcacttctagatgttgggaatacccttataaaattcttcagtaaaaaaaaaa</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2264" stop="4811"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2564" g_stop="2829" g_length="266"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="266" r_length="266" r_score="0.996"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2830" i_stop="4146" i_length="1317">
            <donor d_prob="0.943" d_score="1.00"/>
            <acceptor a_prob="0.987" a_score="1.00"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4147" g_stop="4508" g_length="362"/>
          <reference_exon_boundary r_type="cDNA" r_start="267" r_stop="628" r_length="362" r_score="0.989"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="631" polyA_stop="640"/>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E299242" ref_strand="+">
        <total_alignment_score>0.992</total_alignment_score>
        <cumulative_length_of_scored_exons>628</cumulative_length_of_scored_exons>
        <coverage percentage="0.981" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E299242" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="2564" e_stop="2829"/>
          <exon e_start="4147" e_stop="4508"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAGGTAATTGTTATGGTTGCAATATTGTTGAAATTTATTTTAGTTGCTGCAGTAGATTTTACAATAATAAGTTGCTTAGGTTTAGGATGGATTTGAAATTGGACTTTTTATTAGGTTGTGTTAGTTGTTGAGTTATTTTAGCTCTTTTGAATTGCAGCTTTTCTGCATATTATTTGATCAAATTGGCTATTTAAAGCCTTCTTATGCTTAATGAAAAATTTGAGAGACATTTTTCAACTCTTTTTTGCTGCACTATCTTTTAAGAAAAAACCTACAGTGGTATTAAGAGCCTCATTGATCTTACGGGATCTGTGAGTTCTTCTAGAGAAACATTTTCAACCTGCCAAGGCTACTTTCAACCTATTTTAACCCATCACGCAAGGCTATTTTCAACCAATTTATAACTAATATCAATTTTTAAAGCAATTTTCAACTATGGTAAGTAGTCTCTCTTTCAATGCCCCCACAAACTTTCACCAATGAAAACTATCAAATTTGGTCGGTGAGAATGAAACCATATTTTGACACCTTGTTTTATGGGTTGTTGTGATGGAAGAAAGATCCTTGCAAACAACTTCTACCAAATCCTATCATTGTCCAGAACAAAAACACTTTCAAAAGAGCTTCCAAACTACAAAATTTTCGAGGGTGGTTTTTAGGCAGAAACCCAACAGAAAAAAAAGAGAGAGAGAGATGAAATTTCTTTCCAATTTCAAAAACAGTGAGCAACAATTACCAAATTAAAATTTGAGGAGAATTTTTTAAATTGTAGTAACGAAAGCAAGGGAGGAGTGTTGAAATTTACTTTAGCTACTCCAGTAATTTTAGTTTATGTTTAGGATGAATTTGAAATTTGAACTTTGAACTTTTTTAGGTTGTTTTAGTTGTTGAATTTGAAATTTGATATTTTAACTGTCTTGAACTTTCAAGTACACATTATGTGCTCACATTGACTAGTTAAATCCCTCTTATGCTTAATAACAACATAGAGACTGAGACATTTACGACGCTTTTCTGCTGCACCATAATTCTGTAGTTTGTTGAAATACCACTTGAACCTTCTTTTTAAGCCGTTCAGCATACCAATCCCTTGTCTTTTTGTTTTTCATTTTTACTATAGTATAGTTTTGCATACAATAACTTGCACATGAAGTCAATGATGCAACTTTGTCTGCTACATCTCATCAGCAAGATTTAAAGTTCTTTGCGGTTCAAATTTTAATTCACAAAATTTAGCTTTTGTTGGGTTTAAAGCTATGGAACAGTCAATTGTTGGCAGAGAAGCAAAACTTGTCTGAATTTTCTTCCCATGTATTTTAGGTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAGTCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTAATAAAATTCTTCA</genome_strand>
        <mrna_strand>TTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTACTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCACTTCTGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAATCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTTATAAAATTCTTCA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E577055" ref_strand="-" ref_description="SGN-E577055 [32382]">
      <seq>aagcaatgggcaaaatggaagcagtggccaaaatgggagtagcactgctgtagttgctgaaggaacaaatttggttgctgaaaatgaaactggtgaaaaatgtgaaattggcagtgggagtgggagtgggagtggaagtgcaagcagaagtggtgatcacttggctcaaagagaggctgctttgattaaattccgacaaaagagaaaggagagatgctttgagaagaaggtccggtaccagagtagaaagagacttgcagaacagaggccacgcatgcgagggcaatttgtgcgtcaagatgcagacaaaagtaaaagcaacaatacaaattcctgacccctaccgtttgaattggatggttgatgtcaaatgagttcaagaagctttagctttgatcgcctaggtagggaggaagcagttcggtaaaacagctaaatttatttagttgaagcattgctgtctagtaataattgcttattggagatcatattaattggggagtcctatgaagacgtatttgttatatagtcagtttgaagatacttattttacacttctagatgttgggataccctaataaaattcttcagtatgtttgtgaaaaaaaaaacggcacgagg</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="+" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="2313" stop="4818"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="2613" g_stop="2829" g_length="217"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="229" r_length="229" r_score="0.848"/>
        </exon>
        <intron i_serial="1">
          <gDNA_intron_boundary i_start="2830" i_stop="4146" i_length="1317">
            <donor d_prob="0.943" d_score="0.94"/>
            <acceptor a_prob="0.987" a_score="0.98"/>
          </gDNA_intron_boundary>
        </intron>
        <exon e_serial="2">
          <gDNA_exon_boundary g_start="4147" g_stop="4515" g_length="369"/>
          <reference_exon_boundary r_type="cDNA" r_start="230" r_stop="597" r_length="368" r_score="0.976"/>
        </exon>
      </exon-intron_info>
      <PPA_line polyA_start="602" polyA_stop="612"/>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="+" ref_id="SGN-E577055" ref_strand="-">
        <total_alignment_score>0.928</total_alignment_score>
        <cumulative_length_of_scored_exons>586</cumulative_length_of_scored_exons>
        <coverage percentage="0.944" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="+"/>
        <rDNA rDNA_id="SGN-E577055" rDNA_strand="-"/>
        <gDNA_exon_coordinates>
          <exon e_start="2613" e_stop="2829"/>
          <exon e_start="4147" e_stop="4515"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>AAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGG-A-----AGTGGGAGT------GGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAGGTAATTGTTATGGTTGCAATATTGTTGAAATTTATTTTAGTTGCTGCAGTAGATTTTACAATAATAAGTTGCTTAGGTTTAGGATGGATTTGAAATTGGACTTTTTATTAGGTTGTGTTAGTTGTTGAGTTATTTTAGCTCTTTTGAATTGCAGCTTTTCTGCATATTATTTGATCAAATTGGCTATTTAAAGCCTTCTTATGCTTAATGAAAAATTTGAGAGACATTTTTCAACTCTTTTTTGCTGCACTATCTTTTAAGAAAAAACCTACAGTGGTATTAAGAGCCTCATTGATCTTACGGGATCTGTGAGTTCTTCTAGAGAAACATTTTCAACCTGCCAAGGCTACTTTCAACCTATTTTAACCCATCACGCAAGGCTATTTTCAACCAATTTATAACTAATATCAATTTTTAAAGCAATTTTCAACTATGGTAAGTAGTCTCTCTTTCAATGCCCCCACAAACTTTCACCAATGAAAACTATCAAATTTGGTCGGTGAGAATGAAACCATATTTTGACACCTTGTTTTATGGGTTGTTGTGATGGAAGAAAGATCCTTGCAAACAACTTCTACCAAATCCTATCATTGTCCAGAACAAAAACACTTTCAAAAGAGCTTCCAAACTACAAAATTTTCGAGGGTGGTTTTTAGGCAGAAACCCAACAGAAAAAAAAGAGAGAGAGAGATGAAATTTCTTTCCAATTTCAAAAACAGTGAGCAACAATTACCAAATTAAAATTTGAGGAGAATTTTTTAAATTGTAGTAACGAAAGCAAGGGAGGAGTGTTGAAATTTACTTTAGCTACTCCAGTAATTTTAGTTTATGTTTAGGATGAATTTGAAATTTGAACTTTGAACTTTTTTAGGTTGTTTTAGTTGTTGAATTTGAAATTTGATATTTTAACTGTCTTGAACTTTCAAGTACACATTATGTGCTCACATTGACTAGTTAAATCCCTCTTATGCTTAATAACAACATAGAGACTGAGACATTTACGACGCTTTTCTGCTGCACCATAATTCTGTAGTTTGTTGAAATACCACTTGAACCTTCTTTTTAAGCCGTTCAGCATACCAATCCCTTGTCTTTTTGTTTTTCATTTTTACTATAGTATAGTTTTGCATACAATAACTTGCACATGAAGTCAATGATGCAACTTTGTCTGCTACATCTCATCAGCAAGATTTAAAGTTCTTTGCGGTTCAAATTTTAATTCACAAAATTTAGCTTTTGTTGGGTTTAAAGCTATGGAACAGTCAATTGTTGGCAGAGAAGCAAAACTTGTCTGAATTTTCTTCCCATGTATTTTAGGTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAGTCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTAATAAAATTCTTCAGTATGTT</genome_strand>
        <mrna_strand>AAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGTAGCACTGCTGTAGTTGCTGAAGGAACAAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGCAGTGGGAGTGGGAGTGGGAGTGGAAGTGCAAGCAGAAGTGGTGATCACTTGGCTCAAAGAGAGGCTGCTTTGATTAAATTCCGACAAAAGAGAAAGGAGAGATGCTTTGAGAAGAAG.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................GTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAGAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAGCTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGCTGTCTAGTAATAATTGCTTATTGGAGATCATATTAATTGGGGAGTCCTATGAAGACGTATTTGTTATATAGTCAGTTTGAAGATACTTATTTTACACTTCTAGATGTTGGG-ATACCCTAATAAAATTCTTCAGTATGTT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E246710" ref_strand="+" ref_description="SGN-E246710 [cLEF-45-O22]">
      <seq>cacaaaccgacatatagatttaggggatcggagtgtcacgtaccgacacaagaggattaatgaatattgagggagcggagtgtcacgtaccgacacaagagaaataaagataatgaatcttgaaagatgttaatatactcaatctaatgaacatgattcccaaatgagtatggtattgaggcttgagtcctcatgtgtgaacttgacggtaattgttaatgatatagtatttgttgttgctacatgttgagtatcatagttgattttatgatattacttggtatatatattgatttctattttgagttggccgatgatatctactcagtacccgtgttttgtactgacccctacttttatgttctcttcttgtttatttgtggagtgcagcaaacgtgccatcgtgttcaactcaacagtaattcaagccagtcttactacatcggaaattcagggtgagctaatgcttctagcttggact</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="-" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="15757" stop="14542"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15316" g_stop="14842" g_length="475"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="481" r_length="481" r_score="0.926"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="-" ref_id="SGN-E246710" ref_strand="+">
        <total_alignment_score>0.926</total_alignment_score>
        <cumulative_length_of_scored_exons>475</cumulative_length_of_scored_exons>
        <coverage percentage="0.988" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E246710" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15316" e_stop="14842"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>CACGTTCCGACACATAGTAGTAGGGGATCGGAGTGTCACGTACCGACACAAGAGGATTAATGAATA-TGAGGGAGCGGAGTGTCACGTACCGACACAAGAGAAATAAAGATAATGAATCTTGAAAGATGTTAATATACTCAATCTAATGAACATAATTCCCAAATGAGTATGGTATTGAGGCTTGAGTCCTCCTGTGTGAACTTGACGGTAATTGTTAATGATATAGTACTTGTTGTTGCTACATGTTGAGTATCATAGTTGATTTTATGATATTACTTGG--TATATATTGATTTTTATTTTGAGTTGGCCAATGATATCTACTCAGTACCCGTGTTTTGTACTGACCCCTACTTTTATGTT-TCTTCTTG-TTATTTGTGGAGTGCAGCAAACGTGCCGTCATCTTCGACTCAACAGTAACTCTAGCCAGTCTCATTACTCCGGATA-TCAGGGTGAGCTAATGCTTCTAGCTTGGACT</genome_strand>
        <mrna_strand>CACAAACCGACATATAGATTTAGGGGATCGGAGTGTCACGTACCGACACAAGAGGATTAATGAATATTGAGGGAGCGGAGTGTCACGTACCGACACAAGAGAAATAAAGATAATGAATCTTGAAAGATGTTAATATACTCAATCTAATGAACATGATTCCCAAATGAGTATGGTATTGAGGCTTGAGTCCTCATGTGTGAACTTGACGGTAATTGTTAATGATATAGTATTTGTTGTTGCTACATGTTGAGTATCATAGTTGATTTTATGATATTACTTGGTATATATATTGATTTCTATTTTGAGTTGGCCGATGATATCTACTCAGTACCCGTGTTTTGTACTGACCCCTACTTTTATGTTCTCTTCTTGTTTATTTGTGGAGTGCAGCAAACGTGCCATCGTGTTCAACTCAACAGTAATTCAAGCCAGTCTTACTACATCGGAAATTCAGGGTGAGCTAATGCTTCTAGCTTGGACT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E391780" ref_strand="+" ref_description="SGN-E391780 [TUS-24-O2]">
      <seq>tcacaaaccgacatatagatttaggggatcggagtgtcacgtaccgacacaagaggattaatgaatattgagggagcggagtgtcacgtaccgacacaagagaaataaagataatgaatcttgaaagatgttaatatactcaatctaatgaacatgattcccaaatgagtatggtattgaggcttgagtcctcatgtgtgaacttgacggtaattgttaatgatatagtatttgttgat</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="-" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="15758" stop="14782"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15317" g_stop="15080" g_length="238"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="239" r_length="239" r_score="0.945"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="-" ref_id="SGN-E391780" ref_strand="+">
        <total_alignment_score>0.945</total_alignment_score>
        <cumulative_length_of_scored_exons>238</cumulative_length_of_scored_exons>
        <coverage percentage="0.996" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E391780" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15317" e_stop="15080"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TCACGTTCCGACACATAGTAGTAGGGGATCGGAGTGTCACGTACCGACACAAGAGGATTAATGAATA-TGAGGGAGCGGAGTGTCACGTACCGACACAAGAGAAATAAAGATAATGAATCTTGAAAGATGTTAATATACTCAATCTAATGAACATAATTCCCAAATGAGTATGGTATTGAGGCTTGAGTCCTCCTGTGTGAACTTGACGGTAATTGTTAATGATATAGTACTTGTTGTT</genome_strand>
        <mrna_strand>TCACAAACCGACATATAGATTTAGGGGATCGGAGTGTCACGTACCGACACAAGAGGATTAATGAATATTGAGGGAGCGGAGTGTCACGTACCGACACAAGAGAAATAAAGATAATGAATCTTGAAAGATGTTAATATACTCAATCTAATGAACATGATTCCCAAATGAGTATGGTATTGAGGCTTGAGTCCTCATGTGTGAACTTGACGGTAATTGTTAATGATATAGTATTTGTTGAT</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
  <spliced_alignment xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
    <reference ref_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/gth_cdna_fileCXGN::BACSubmission::Analysis::GenomeThreader_SGN_E_tomato_potato" ref_id="SGN-E357559" ref_strand="+" ref_description="SGN-E357559 [cTOS-23-F2]">
      <seq>tagtcttcggtggaggtaggttattgtttctcttacgatattcgtagtaaactcttaatagagaatgatatgtattgataatattgtaaaccctgctatgtgcttaattgtatgcttgcatgaatgtaactatataattgttattatataagcatgatgaagttattgaatcccaaatcttgtaaaaacctaatctctttttaatgatgatgccttggtaagggagaaggcttgatgaactaaagtaatgagattgatgatgccttggtaagggagaaggcttgatgaattgatagaatgagattaggggatcgggtgtcacgaactgacacgtagaattaggggatcgggtgtcacaaaccgacacgtagattaagggatcaggtgtcacgaaccaacaca</seq>
    </reference>
    <gDNA_segment>
      <template temp_file="/tmp/bac-submission-temp-C04HBa0239P14-2LgLV/GenomeThreader_SGN_E_tomato_potato/un_xed_seqs" temp_id="C04HBa0239P14.1" temp_strand="-" temp_description="C04HBa0239P14.1  CU639482.4 htgs_phase:3 submitted_to_sgn_as:C04HBa0239P14 sequenced_by:sanger upload_account_name:uk">
        <position start="16147" stop="15146"/>
      </template>
    </gDNA_segment>
    <predicted_gene_structure xmlns="http://www.genomethreader.org/GTH_output/alignment_module/spliced_alignment/">
      <exon-intron_info>
        <exon e_serial="1">
          <gDNA_exon_boundary g_start="15847" g_stop="15444" g_length="404"/>
          <reference_exon_boundary r_type="cDNA" r_start="1" r_stop="402" r_length="402" r_score="0.911"/>
        </exon>
      </exon-intron_info>
      <MATCH_line gen_id="C04HBa0239P14.1" gen_strand="-" ref_id="SGN-E357559" ref_strand="+">
        <total_alignment_score>0.911</total_alignment_score>
        <cumulative_length_of_scored_exons>404</cumulative_length_of_scored_exons>
        <coverage percentage="1.005" high_type="C"/>
      </MATCH_line>
      <PGS_line>
        <gDNA gen_id="C04HBa0239P14.1" gen_strand="-"/>
        <rDNA rDNA_id="SGN-E357559" rDNA_strand="+"/>
        <gDNA_exon_coordinates>
          <exon e_start="15847" e_stop="15444"/>
        </gDNA_exon_coordinates>
      </PGS_line>
      <alignment>
        <genome_strand>TAGTCTTCGGTGGAGGTAGGTTATGGTTTCTCTTACGATATTCGTAGTAAACTCTAAATAGCGAATGATATGTATTGATAATATTGTAAACCCTGCTATGTGCTTAATTGTATGCTTGCATGGATGTAATTATATAATTGTGATTATATAAGCATGATGAAGTTATTGAATCCCAAATCTTGCAAAACCCTAATCTTTTTGTTAATGATGAGGCCTTGGTATAAAAGAAGGCATGATGAACTAAA-TAATGAGAATGATGATACCTTGGTAAGAAAGAAGGCTTGATGAATCGATAGAAGGAGATCTAGGGGATCGGGTGTCACGAATCGACACGTAGATTTAGGGGATCGGGTGTCACGAATCGACACGTAGATTTAGGGGATCGGGTGTCACGAACCGACATG</genome_strand>
        <mrna_strand>TAGTCTTCGGTGGAGGTAGGTTATTGTTTCTCTTACGATATTCGTAGTAAACTCTTAATAGAGAATGATATGTATTGATAATATTGTAAACCCTGCTATGTGCTTAATTGTATGCTTGCATGAATGTAACTATATAATTGTTATTATATAAGCATGATGAAGTTATTGAATCCCAAATCTTGTAAAAACCTAATCTCTTT-TTAATGATGATGCCTTGGTAAGGGAGAAGGCTTGATGAACTAAAGTAATGAGATTGATGATGCCTTGGTAAGGGAGAAGGCTTGATGAATTGATAGAATGAGAT-TAGGGGATCGGGTGTCACGAACTGACACGTAGAATTAGGGGATCGGGTGTCACAAACCGACACGTAGA-TTAAGGGATCAGGTGTCACGAACCAACACA</mrna_strand>
      </alignment>
    </predicted_gene_structure>
  </spliced_alignment>
    <total_number_ESTs_reported>20</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="1536" PGL_stop="4521"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="1536" e_stop="1950"/>
            <exon e_start="2031" e_stop="2829"/>
            <exon e_start="4147" e_stop="4521"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-intron don_prob="0.997" acc_prob="0.994" e_score="1.000"/>
          <exon-intron don_prob="0.943" acc_prob="0.987" e_score="0.994"/>
          <exon-only e_score="1.000"/>
        </SCR_line>
        <exon-intron_info xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/exon-intron_info/">
          <exon e_serial="1" e_score="1.000">
            <gDNA_exon_boundary e_start="1536" e_stop="1950" e_length="415"/>
          </exon>
          <intron i_serial="1" don_prob="0.997" acc_prob="0.994">
            <gDNA_intron_boundary i_start="1951" i_stop="2030" i_length="80"/>
          </intron>
          <exon e_serial="2" e_score="0.994">
            <gDNA_exon_boundary e_start="2031" e_stop="2829" e_length="799"/>
          </exon>
          <intron i_serial="2" don_prob="0.943" acc_prob="0.987">
            <gDNA_intron_boundary i_start="2830" i_stop="4146" i_length="1317"/>
          </intron>
          <exon e_serial="3" e_score="1.000">
            <gDNA_exon_boundary e_start="4147" e_stop="4521" e_length="375"/>
          </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="1536" stop="1950"/>
              <exon start="2031" stop="2352"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E326799" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1558" stop="1950"/>
              <exon start="2031" stop="2329"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E258370" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1558" stop="1950"/>
              <exon start="2031" stop="2326"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E262128" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1611" stop="1950"/>
              <exon start="2031" stop="2465"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E402577" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1611" stop="1950"/>
              <exon start="2031" stop="2327"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E432951" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1667" stop="1950"/>
              <exon start="2031" stop="2485"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E455434" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="1943" stop="1950"/>
              <exon start="2031" stop="2710"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E328236" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2033" stop="2550"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E207633" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2056" stop="2590"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E260325" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2059" stop="2292"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E261153" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2071" stop="2682"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E486697" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2407" stop="2727"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365268" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2409" stop="2826"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E365269" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2446" stop="2829"/>
              <exon start="4147" stop="4296"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E318548" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2459" stop="2829"/>
              <exon start="4147" stop="4521"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E372223" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2564" stop="2829"/>
              <exon start="4147" stop="4508"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E299242" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="2613" stop="2829"/>
              <exon start="4147" stop="4515"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E577055" 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>TGAACATGGGCGTTGCTAATGTTCCAGAGCTCGAAGGCCTATCAGGTAAAGTTATGGATGGTTTAGCAGCTTCTATGAAGGACAAACATTTGGAGTTAGATCCTAAAGATAATGAGAATATGGGTAGAAACCTAAAGCTGAACAAGGAAACACGGGAAGATGACCTGAAGGACAAGGATGTTGGTTATATGGGTGACATAACCAACACATGTACGCCTCAAGTAGAAAGTACTGCCAATGAAGTTCCAAATGATCCTTCCAAGATCACAAACATCAAAGAAATTGCCACCTATGACAGTAAAGACATGCCTTCACTTGAACTTAGTTTGAAGCAACTTCGAGATGTTGGAGAGAATGGGACTGGTGTGCAAGAGCGAAATATACTCAGGCATTCAGATCTGTCAGCGTTCTCTAG : GTATAATGCTGCTTCAACTGCTAATCAGGCTCCAACTGGAAACGTGGGCAGCTGTTCACCAGTTAATAATAGTTCAGAAGTTGCAAAAGCAGAATCAATTCACAACTTGCAATCCAAGTCGAGCAGTACCCCTAATCAGCGCTCAAATGGAAGTAGTAACAACAATGACATGGGCTCGTCGACAAATAATTTCTTCATCAAACCAGACACATTAATTGACAAACCAATAAACAAACCTGCAGTCAATGCCCATTCCTGTTCTGCATTTCAACCAGTGCAACATGGACATACTTCTTCTCTTCAAGCAATGGTTCCAGGAACACAAGATACTGCAAAGGCAGCCGTGGGCCAAGCAAGAGCAATGCACCAGAAGTTCCAAGTTCAGCACCACCATCATCACTACCATCACCATCACCACCATGTGCTTAGCTTGCAGCAGCGACAACAGCTGCTTAATGCTGATGCTTCGTCTTTGCGAAATGCTGTTGAAACTGCTCCCGATTGTGGAACATCTGACATGGTAGGTACTCCTGTTGAAGGAAATGCTGCTAATTATGGAAGTGCATCAGGAAGTAACAATGGAAGCAATGGGCAAAATGGAAGCAGTGGCCAAAATGGGAGCAGCACTGCTGTAGTTGCTGAAGGAACCAATTTGGTTGCTGAAAATGAAACTGGTGAAAAATGTGAAATTGGAAGTGGGAGTGGAAGTGCAACTAGAAGTGGTGATCACTCGGCTCAACGAGAGGCTGCTCTGATTAAATTCCGGCAAAAGAGGAAGGAGAGATGCTTTGAGAAGAAG : GTCCGGTACCAGAGTAGAAAGAGACTTGCAGAACAAAGGCCACGCATGCGAGGGCAATTTGTGCGTCAAGATGCAGACAAAAGTAAAAGCAACAATACAAATTCCTGACCCCTACCGTTTGAATTGGATGGTTGATGTCAAATGAGTTCAAGAAGCTTTAACTTTGATCGCCTAGGTAGGGAGGAAGCAGTTCGGTAAAACAGCTAAATTTATTTAGTTGAAGCATTGGTGTCTAGTAATAATTACTTATTGGAGATGTTATTAATTGGGGAGTCCTATGAAGACGTCTTTGTTATATAGTCAGTTTGAAGATACTTATTTTGCACTTCTAGATGTTGGGAATACCCTAATAAAATTCTTCAGTATGTTGTGCTT</gDNA_template>
            <first_frame> *  T  W  A  L  L  M  F  Q  S  S  K  A  Y  Q  V  K  L  W  M  V  *  Q  L  L  *  R  T  N  I  W  S  *  I  L  K  I  M  R  I  W  V  E  T  *  S  *  T  R  K  H  G  K  M  T  *  R  T  R  M  L  V  I  W  V  T  *  P  T  H  V  R  L  K  *  K  V  L  P  M  K  F  Q  M  I  L  P  R  S  Q  T  S  K  K  L  P  P  M  T  V  K  T  C  L  H  L  N  L  V  *  S  N  F  E  M  L  E  R  M  G  L  V  C  K  S  E  I  Y  S  G  I  Q  I  C  Q  R  S  L   : G  I  M  L  L  Q  L  L  I  R  L  Q  L  E  T  W  A  A  V  H  Q  L  I  I  V  Q  K  L  Q  K  Q  N  Q  F  T  T  C  N  P  S  R  A  V  P  L  I  S  A  Q  M  E  V  V  T  T  M  T  W  A  R  R  Q  I  I  S  S  S  N  Q  T  H  *  L  T  N  Q  *  T  N  L  Q  S  M  P  I  P  V  L  H  F  N  Q  C  N  M  D  I  L  L  L  F  K  Q  W  F  Q  E  H  K  I  L  Q  R  Q  P  W  A  K  Q  E  Q  C  T  R  S  S  K  F  S  T  T  I  I  T  T  I  T  I  T  T  M  C  L  A  C  S  S  D  N  S  C  L  M  L  M  L  R  L  C  E  M  L  L  K  L  L  P  I  V  E  H  L  T  W  *  V  L  L  L  K  E  M  L  L  I  M  E  V  H  Q  E  V  T  M  E  A  M  G  K  M  E  A  V  A  K  M  G  A  A  L  L  *  L  L  K  E  P  I  W  L  L  K  M  K  L  V  K  N  V  K  L  E  V  G  V  E  V  Q  L  E  V  V  I  T  R  L  N  E  R  L  L  *  L  N  S  G  K  R  G  R  R  D  A  L  R  R  R :   S  G  T  R  V  E  R  D  L  Q  N  K  G  H  A  C  E  G  N  L  C  V  K  M  Q  T  K  V  K  A  T  I  Q  I  P  D  P  Y  R  L  N  W  M  V  D  V  K  *  V  Q  E  A  L  T  L  I  A  *  V  G  R  K  Q  F  G  K  T  A  K  F  I  *  L  K  H  W  C  L  V  I  I  T  Y  W  R  C  Y  *  L  G  S  P  M  K  T  S  L  L  Y  S  Q  F  E  D  T  Y  F  A  L  L  D  V  G  N  T  L  I  K  F  F  S  M  L  C   </first_frame>
            <second_frame>  E  H  G  R  C  *  C  S  R  A  R  R  P  I  R  *  S  Y  G  W  F  S  S  F  Y  E  G  Q  T  F  G  V  R  S  *  R  *  *  E  Y  G  *  K  P  K  A  E  Q  G  N  T  G  R  *  P  E  G  Q  G  C  W  L  Y  G  *  H  N  Q  H  M  Y  A  S  S  R  K  Y  C  Q  *  S  S  K  *  S  F  Q  D  H  K  H  Q  R  N  C  H  L  *  Q  *  R  H  A  F  T  *  T  *  F  E  A  T  S  R  C  W  R  E  W  D  W  C  A  R  A  K  Y  T  Q  A  F  R  S  V  S  V  L  *  :  V  *  C  C  F  N  C  *  S  G  S  N  W  K  R  G  Q  L  F  T  S  *  *  *  F  R  S  C  K  S  R  I  N  S  Q  L  A  I  Q  V  E  Q  Y  P  *  S  A  L  K  W  K  *  *  Q  Q  *  H  G  L  V  D  K  *  F  L  H  Q  T  R  H  I  N  *  Q  T  N  K  Q  T  C  S  Q  C  P  F  L  F  C  I  S  T  S  A  T  W  T  Y  F  F  S  S  S  N  G  S  R  N  T  R  Y  C  K  G  S  R  G  P  S  K  S  N  A  P  E  V  P  S  S  A  P  P  S  S  L  P  S  P  S  P  P  C  A  *  L  A  A  A  T  T  A  A  *  C  *  C  F  V  F  A  K  C  C  *  N  C  S  R  L  W  N  I  *  H  G  R  Y  S  C  *  R  K  C  C  *  L  W  K  C  I  R  K  *  Q  W  K  Q  W  A  K  W  K  Q  W  P  K  W  E  Q  H  C  C  S  C  *  R  N  Q  F  G  C  *  K  *  N  W  *  K  M  *  N  W  K  W  E  W  K  C  N  *  K  W  *  S  L  G  S  T  R  G  C  S  D  *  I  P  A  K  E  E  G  E  M  L  *  E  E   : G  P  V  P  E  *  K  E  T  C  R  T  K  A  T  H  A  R  A  I  C  A  S  R  C  R  Q  K  *  K  Q  Q  Y  K  F  L  T  P  T  V  *  I  G  W  L  M  S  N  E  F  K  K  L  *  L  *  S  P  R  *  G  G  S  S  S  V  K  Q  L  N  L  F  S  *  S  I  G  V  *  *  *  L  L  I  G  D  V  I  N  W  G  V  L  *  R  R  L  C  Y  I  V  S  L  K  I  L  I  L  H  F  *  M  L  G  I  P  *  *  N  S  S  V  C  C  A  </second_frame>
            <third_frame>   N  M  G  V  A  N  V  P  E  L  E  G  L  S  G  K  V  M  D  G  L  A  A  S  M  K  D  K  H  L  E  L  D  P  K  D  N  E  N  M  G  R  N  L  K  L  N  K  E  T  R  E  D  D  L  K  D  K  D  V  G  Y  M  G  D  I  T  N  T  C  T  P  Q  V  E  S  T  A  N  E  V  P  N  D  P  S  K  I  T  N  I  K  E  I  A  T  Y  D  S  K  D  M  P  S  L  E  L  S  L  K  Q  L  R  D  V  G  E  N  G  T  G  V  Q  E  R  N  I  L  R  H  S  D  L  S  A  F  S  R :   Y  N  A  A  S  T  A  N  Q  A  P  T  G  N  V  G  S  C  S  P  V  N  N  S  S  E  V  A  K  A  E  S  I  H  N  L  Q  S  K  S  S  S  T  P  N  Q  R  S  N  G  S  S  N  N  N  D  M  G  S  S  T  N  N  F  F  I  K  P  D  T  L  I  D  K  P  I  N  K  P  A  V  N  A  H  S  C  S  A  F  Q  P  V  Q  H  G  H  T  S  S  L  Q  A  M  V  P  G  T  Q  D  T  A  K  A  A  V  G  Q  A  R  A  M  H  Q  K  F  Q  V  Q  H  H  H  H  H  Y  H  H  H  H  H  H  V  L  S  L  Q  Q  R  Q  Q  L  L  N  A  D  A  S  S  L  R  N  A  V  E  T  A  P  D  C  G  T  S  D  M  V  G  T  P  V  E  G  N  A  A  N  Y  G  S  A  S  G  S  N  N  G  S  N  G  Q  N  G  S  S  G  Q  N  G  S  S  T  A  V  V  A  E  G  T  N  L  V  A  E  N  E  T  G  E  K  C  E  I  G  S  G  S  G  S  A  T  R  S  G  D  H  S  A  Q  R  E  A  A  L  I  K  F  R  Q  K  R  K  E  R  C  F  E  K  K  :  V  R  Y  Q  S  R  K  R  L  A  E  Q  R  P  R  M  R  G  Q  F  V  R  Q  D  A  D  K  S  K  S  N  N  T  N  S  *  P  L  P  F  E  L  D  G  *  C  Q  M  S  S  R  S  F  N  F  D  R  L  G  R  E  E  A  V  R  *  N  S  *  I  Y  L  V  E  A  L  V  S  S  N  N  Y  L  L  E  M  L  L  I  G  E  S  Y  E  D  V  F  V  I  *  S  V  *  R  Y  L  F  C  T  S  R  C  W  E  Y  P  N  K  I  L  Q  Y  V  V  L </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <orf_entry>
              <id_line>
                <gDNA id="C04HBa0239P14.1" strand="+"/>
                <serials PGL_serial="1" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="1538" stop="1950"/>
                    <exon start="2031" stop="2829"/>
                    <exon start="4147" stop="4254"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>1317</number_coding_nucleotides>
                  <number_encoded_amino_acids>439</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>NMGVANVPELEGLSGKVMDGLAASMKDKHLELDPKDNENMGRNLKLNKETREDDLKDKDVGYMGDITNTCTPQVESTANEVPNDPSKITNIKEIATYDSKDMPSLELSLKQLRDVGENGTGVQERNILRHSDLSAFSRYNAASTANQAPTGNVGSCSPVNNSSEVAKAESIHNLQSKSSSTPNQRSNGSSNNNDMGSSTNNFFIKPDTLIDKPINKPAVNAHSCSAFQPVQHGHTSSLQAMVPGTQDTAKAAVGQARAMHQKFQVQHHHHHYHHHHHHVLSLQQRQQLLNADASSLRNAVETAPDCGTSDMVGTPVEGNAANYGSASGSNNGSNGQNGSSGQNGSSTAVVAEGTNLVAENETGEKCEIGSGSGSATRSGDHSAQREAALIKFRQKRKERCFEKKVRYQSRKRLAEQRPRMRGQFVRQDADKSKSNNTNS*</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="2" PGL_strand="-" PGL_start="15317" PGL_stop="14842"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="15317" e_stop="14842"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.926"/>
        </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="0.926">
            <gDNA_exon_boundary e_start="15317" e_stop="14842" e_length="476"/>
          </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="15317" stop="15080"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E391780" strand="+"/>
          </PGS_line>
          <PGS_line>
            <gDNA_exon_coordinates>
              <exon start="15316" stop="14842"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E246710" 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>TCACGTTCCGACACATAGTAGTAGGGGATCGGAGTGTCACGTACCGACACAAGAGGATTAATGAATATGAGGGAGCGGAGTGTCACGTACCGACACAAGAGAAATAAAGATAATGAATCTTGAAAGATGTTAATATACTCAATCTAATGAACATAATTCCCAAATGAGTATGGTATTGAGGCTTGAGTCCTCCTGTGTGAACTTGACGGTAATTGTTAATGATATAGTACTTGTTGTTGCTACATGTTGAGTATCATAGTTGATTTTATGATATTACTTGGTATATATTGATTTTTATTTTGAGTTGGCCAATGATATCTACTCAGTACCCGTGTTTTGTACTGACCCCTACTTTTATGTTTCTTCTTGTTATTTGTGGAGTGCAGCAAACGTGCCGTCATCTTCGACTCAACAGTAACTCTAGCCAGTCTCATTACTCCGGATATCAGGGTGAGCTAATGCTTCTAGCTTGGACT</gDNA_template>
            <first_frame> S  R  S  D  T  *  *  *  G  I  G  V  S  R  T  D  T  R  G  L  M  N  M  R  E  R  S  V  T  Y  R  H  K  R  N  K  D  N  E  S  *  K  M  L  I  Y  S  I  *  *  T  *  F  P  N  E  Y  G  I  E  A  *  V  L  L  C  E  L  D  G  N  C  *  *  Y  S  T  C  C  C  Y  M  L  S  I  I  V  D  F  M  I  L  L  G  I  Y  *  F  L  F  *  V  G  Q  *  Y  L  L  S  T  R  V  L  Y  *  P  L  L  L  C  F  F  L  L  F  V  E  C  S  K  R  A  V  I  F  D  S  T  V  T  L  A  S  L  I  T  P  D  I  R  V  S  *  C  F  *  L  G   </first_frame>
            <second_frame>  H  V  P  T  H  S  S  R  G  S  E  C  H  V  P  T  Q  E  D  *  *  I  *  G  S  G  V  S  R  T  D  T  R  E  I  K  I  M  N  L  E  R  C  *  Y  T  Q  S  N  E  H  N  S  Q  M  S  M  V  L  R  L  E  S  S  C  V  N  L  T  V  I  V  N  D  I  V  L  V  V  A  T  C  *  V  S  *  L  I  L  *  Y  Y  L  V  Y  I  D  F  Y  F  E  L  A  N  D  I  Y  S  V  P  V  F  C  T  D  P  Y  F  Y  V  S  S  C  Y  L  W  S  A  A  N  V  P  S  S  S  T  Q  Q  *  L  *  P  V  S  L  L  R  I  S  G  *  A  N  A  S  S  L  D  </second_frame>
            <third_frame>   T  F  R  H  I  V  V  G  D  R  S  V  T  Y  R  H  K  R  I  N  E  Y  E  G  A  E  C  H  V  P  T  Q  E  K  *  R  *  *  I  L  K  D  V  N  I  L  N  L  M  N  I  I  P  K  *  V  W  Y  *  G  L  S  P  P  V  *  T  *  R  *  L  L  M  I  *  Y  L  L  L  L  H  V  E  Y  H  S  *  F  Y  D  I  T  W  Y  I  L  I  F  I  L  S  W  P  M  I  S  T  Q  Y  P  C  F  V  L  T  P  T  F  M  F  L  L  V  I  C  G  V  Q  Q  T  C  R  H  L  R  L  N  S  N  S  S  Q  S  H  Y  S  G  Y  Q  G  E  L  M  L  L  A  W  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="C04HBa0239P14.1" strand="-"/>
                <serials PGL_serial="2" AGS_serial="1" PPS_serial="1"/>
                <orf_info>
                  <exon_boundaries>
                    <exon start="15054" stop="14842"/>
                  </exon_boundaries>
                  <frame>2</frame>
                  <number_coding_nucleotides>213</number_coding_nucleotides>
                  <number_encoded_amino_acids>71</number_encoded_amino_acids>
                </orf_info>
              </id_line>
              <predicted_protein_sequence>FYDITWYILIFILSWPMISTQYPCFVLTPTFMFLLVICGVQQTCRHLRLNSNSSQSHYSGYQGELMLLAWT</predicted_protein_sequence>
            </orf_entry>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
    <predicted_gene_location>
      <PGL_line PGL_serial="3" PGL_strand="-" PGL_start="15847" PGL_stop="15444"/>
      <AGS_information>
        <AGS_line AGS_serial="1">
          <exon_coordinates>
            <exon e_start="15847" e_stop="15444"/>
          </exon_coordinates>
        </AGS_line>
        <SCR_line>
          <exon-only e_score="0.911"/>
        </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="0.911">
            <gDNA_exon_boundary e_start="15847" e_stop="15444" e_length="404"/>
          </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="15847" stop="15444"/>
            </gDNA_exon_coordinates>
            <referenceDNA id="SGN-E357559" 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>TAGTCTTCGGTGGAGGTAGGTTATGGTTTCTCTTACGATATTCGTAGTAAACTCTAAATAGCGAATGATATGTATTGATAATATTGTAAACCCTGCTATGTGCTTAATTGTATGCTTGCATGGATGTAATTATATAATTGTGATTATATAAGCATGATGAAGTTATTGAATCCCAAATCTTGCAAAACCCTAATCTTTTTGTTAATGATGAGGCCTTGGTATAAAAGAAGGCATGATGAACTAAATAATGAGAATGATGATACCTTGGTAAGAAAGAAGGCTTGATGAATCGATAGAAGGAGATCTAGGGGATCGGGTGTCACGAATCGACACGTAGATTTAGGGGATCGGGTGTCACGAATCGACACGTAGATTTAGGGGATCGGGTGTCACGAACCGACATG</gDNA_template>
            <first_frame> *  S  S  V  E  V  G  Y  G  F  S  Y  D  I  R  S  K  L  *  I  A  N  D  M  Y  *  *  Y  C  K  P  C  Y  V  L  N  C  M  L  A  W  M  *  L  Y  N  C  D  Y  I  S  M  M  K  L  L  N  P  K  S  C  K  T  L  I  F  L  L  M  M  R  P  W  Y  K  R  R  H  D  E  L  N  N  E  N  D  D  T  L  V  R  K  K  A  *  *  I  D  R  R  R  S  R  G  S  G  V  T  N  R  H  V  D  L  G  D  R  V  S  R  I  D  T  *  I  *  G  I  G  C  H  E  P  T   </first_frame>
            <second_frame>  S  L  R  W  R  *  V  M  V  S  L  T  I  F  V  V  N  S  K  *  R  M  I  C  I  D  N  I  V  N  P  A  M  C  L  I  V  C  L  H  G  C  N  Y  I  I  V  I  I  *  A  *  *  S  Y  *  I  P  N  L  A  K  P  *  S  F  C  *  *  *  G  L  G  I  K  E  G  M  M  N  *  I  M  R  M  M  I  P  W  *  E  R  R  L  D  E  S  I  E  G  D  L  G  D  R  V  S  R  I  D  T  *  I  *  G  I  G  C  H  E  S  T  R  R  F  R  G  S  G  V  T  N  R  H  </second_frame>
            <third_frame>   V  F  G  G  G  R  L  W  F  L  L  R  Y  S  *  *  T  L  N  S  E  *  Y  V  L  I  I  L  *  T  L  L  C  A  *  L  Y  A  C  M  D  V  I  I  *  L  *  L  Y  K  H  D  E  V  I  E  S  Q  I  L  Q  N  P  N  L  F  V  N  D  E  A  L  V  *  K  K  A  *  *  T  K  *  *  E  *  *  Y  L  G  K  K  E  G  L  M  N  R  *  K  E  I  *  G  I  G  C  H  E  S  T  R  R  F  R  G  S  G  V  T  N  R  H  V  D  L  G  D  R  V  S  R  T  D  M </third_frame>
          </translation>
          <probable_ORFs xmlns="http://www.genomethreader.org/GTH_output/PGL_module/predicted_gene_location/AGS_information/three_phase_translation/probable_ORFs/">
            <none gDNA_id="C04HBa0239P14.1"/>
          </probable_ORFs>
        </three_phase_translation>
      </AGS_information>
    </predicted_gene_location>
  </PGL_module>
</GTH_output>
<!--
$ general statistics:
$ 89 chains have been computed
$ 
$ memory statistics:
$ 43952 bytes spliced alignments in total
$ 20 spliced alignments have been stored
$ 2197 bytes was the average size of a spliced alignment
$ 8072 bytes predicted gene locations in total
$ 3 predicted gene locations have been stored
$ 2690 bytes was the average size of a predicted gene location
$ 0 megabytes was the average size of the backtrace matrix
$ 122 backtrace matrices have been allocated
$ 
$ date finished: 2009-01-15 05:23:51
-->
